Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 87 of 147
Found at i:16005864 original size:2 final size:2
Alignment explanation
Indices: 16005859--16005897 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
16005849 TTTTTTTAAA
16005859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16005898 AAAGAAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16006419 original size:14 final size:15
Alignment explanation
Indices: 16006400--16006428 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16006390 CTTATTTTCC
16006400 TAAAAAA-AAATGTT
1 TAAAAAATAAATGTT
16006414 TAAAAAATAAATGTT
1 TAAAAAATAAATGTT
16006429 CTTATCTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
TAAAAAATAAATGTT
Found at i:16013226 original size:28 final size:28
Alignment explanation
Indices: 16013188--16013244 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
16013178 CTCTTAAAAC
*
16013188 AAAAATAGAAAAAT-ATAAGAAAAAGAAA
1 AAAAATAG-AAAATGAAAAGAAAAAGAAA
* *
16013216 AAAAATTGAAAATGAAAAGAAAATGAAA
1 AAAAATAGAAAATGAAAAGAAAAAGAAA
16013244 A
1 A
16013245 TTGTGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (28 bp):
AAAAATAGAAAATGAAAAGAAAAAGAAA
Found at i:16013245 original size:17 final size:17
Alignment explanation
Indices: 16013206--16013245 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16013196 AAAAATATAA
*
16013206 GAAAAAGAAAAAAAATT
1 GAAAATGAAAAAAAATT
16013223 GAAAATGAAAAGAAAA-T
1 GAAAATGAAAA-AAAATT
16013240 GAAAAT
1 GAAAAT
16013246 TGTGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (17 bp):
GAAAATGAAAAAAAATT
Found at i:16014463 original size:140 final size:140
Alignment explanation
Indices: 16014311--16014589 Score: 495
Period size: 140 Copynumber: 2.0 Consensus size: 140
16014301 TGTATCTAAC
*
16014311 CAATTTACCATGATGTTGATTTCATAAATCAAGACTGTCATTTATATTTATTATTATTAATTAAA
1 CAATTTACCATGATGCTGATTTCATAAATCAAGACTGTCATTTATATTTATTATTATTAATTAAA
* *
16014376 GTAAAAGTTACCTCTCAAATACGGCATCATATACATACAAATGAGTCAAATGACAGTTTTATGAA
66 GTAAAAGTTACCTCTCAAATACGGCATCATATACATACAAATGAGTCAAATCACAGTTATATGAA
*
16014441 TCTGCCTTCT
131 TCTCCCTTCT
*
16014451 CAATTTAGCATGATGCTGATTTCATAAATCAAGACTGTCATTTATATTTATTATTATTAATTAAA
1 CAATTTACCATGATGCTGATTTCATAAATCAAGACTGTCATTTATATTTATTATTATTAATTAAA
* *
16014516 GTAAAAGTTACCTCTCAAATACGGTATCATATACATACAAATGAGTCCAATCACAGTTATATGAA
66 GTAAAAGTTACCTCTCAAATACGGCATCATATACATACAAATGAGTCAAATCACAGTTATATGAA
16014581 TCTCCCTTC
131 TCTCCCTTC
16014590 CACTTTGTTT
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 132 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (140 bp):
CAATTTACCATGATGCTGATTTCATAAATCAAGACTGTCATTTATATTTATTATTATTAATTAAA
GTAAAAGTTACCTCTCAAATACGGCATCATATACATACAAATGAGTCAAATCACAGTTATATGAA
TCTCCCTTCT
Found at i:16017897 original size:12 final size:12
Alignment explanation
Indices: 16017880--16017930 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
16017870 GTTTCACAGG
* *
16017880 TTTTTCCTTTTC
1 TTTTTCATTTTA
16017892 TTTTTCATTTTA
1 TTTTTCATTTTA
*
16017904 TTTTTTATTTTGA
1 TTTTTCATTTT-A
*
16017917 -TTTTGATTTTA
1 TTTTTCATTTTA
16017928 TTT
1 TTT
16017931 ATTTTATGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 1 0.03
12 31 0.94
13 1 0.03
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.76
Consensus pattern (12 bp):
TTTTTCATTTTA
Found at i:16017908 original size:18 final size:19
Alignment explanation
Indices: 16017893--16017954 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
16017883 TTCCTTTTCT
16017893 TTTTCATTTT-ATTTTTTA
1 TTTTCATTTTGATTTTTTA
*
16017911 TTTTGATTTTGATTTTATTTA
1 TTTTCATTTTGA-TTT-TTTA
*
16017932 TTTT-ATGTTGATTTTTTTA
1 TTTTCATTTTGA-TTTTTTA
16017951 TTTT
1 TTTT
16017955 TTATAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.23
19 9 0.23
20 13 0.33
21 8 0.21
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (19 bp):
TTTTCATTTTGATTTTTTA
Found at i:16017944 original size:20 final size:20
Alignment explanation
Indices: 16017904--16017954 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
16017894 TTTCATTTTA
*
16017904 TTTTTTATTTTGATTTTGAT
1 TTTTTTATTTTGATGTTGAT
16017924 TTTATTTATTTT-ATGTTGAT
1 TTT-TTTATTTTGATGTTGAT
16017944 TTTTTTATTTT
1 TTTTTTATTTT
16017955 TTATAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 8 0.28
20 13 0.45
21 8 0.28
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTTGATGTTGAT
Found at i:16017957 original size:26 final size:26
Alignment explanation
Indices: 16017892--16017958 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
16017882 TTTCCTTTTC
* *
16017892 TTTTTCATTTTATT-TTTTATTTTGAT
1 TTTTTTATTTT-TTATTTTATGTTGAT
* *
16017918 TTTGATT-TTATTTATTTTATGTTGAT
1 TTT-TTTATTTTTTATTTTATGTTGAT
16017944 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
16017959 AATATTATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 4 0.12
26 27 0.84
27 1 0.03
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.76
Consensus pattern (26 bp):
TTTTTTATTTTTTATTTTATGTTGAT
Found at i:16018048 original size:16 final size:15
Alignment explanation
Indices: 16018023--16018052 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16018013 TTTTAGAAAT
16018023 AAATAAATAAAATAA
1 AAATAAATAAAATAA
16018038 AAATAAAATAAAATA
1 AAAT-AAATAAAATA
16018053 TGGACCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAAATAAAATAA
Found at i:16018226 original size:20 final size:19
Alignment explanation
Indices: 16018192--16018232 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
16018182 TTTTGCTAAA
*
16018192 AAATAAAATAAAAAATGAT
1 AAATAAAATAAAAAATAAT
16018211 AAATAAAATAAAAAAATAAT
1 AAATAAAAT-AAAAAATAAT
16018231 AA
1 AA
16018233 GTTGTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATAAAATAAAAAATAAT
Found at i:16030670 original size:39 final size:39
Alignment explanation
Indices: 16030635--16030866 Score: 207
Period size: 39 Copynumber: 5.9 Consensus size: 39
16030625 ATAAAGTGTG
*
16030635 TTGCCTTTGGTTAAAAGAGCATTTTGAATTTAAAGTTCA
1 TTGCCTTTGGTTAAAGGAGCATTTTGAATTTAAAGTTCA
* * * * * **
16030674 TTGCCTCTAGTCAAAGGAATC-TTTTAACATTTAAAGTTTG
1 TTGCCTTTGGTTAAAGG-AGCATTTTGA-ATTTAAAGTTCA
* *
16030714 TTACCTTTGGTTAAAGGAGCATTTTGAATCTAAAGTTCA
1 TTGCCTTTGGTTAAAGGAGCATTTTGAATTTAAAGTTCA
* * * * *
16030753 TTGCCTTTGGTGAGAGGAACCTTTTCAATTTAAAGTTCA
1 TTGCCTTTGGTTAAAGGAGCATTTTGAATTTAAAGTTCA
* * * * * * *
16030792 TTACCTTTGGTCACAGAAGCCTTTTAACATTCAAAGTTTCA
1 TTGCCTTTGGTTAAAGGAGCATTTTGA-ATTTAAAG-TTCA
16030833 TTGCCTTTGGTTAAAGGAGTC-TTTTGAATTTAAA
1 TTGCCTTTGGTTAAAGGAG-CATTTTGAATTTAAA
16030867 ATTTCATAAC
Statistics
Matches: 150, Mismatches: 37, Indels: 11
0.76 0.19 0.06
Matches are distributed among these distances:
39 82 0.55
40 43 0.29
41 24 0.16
42 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (39 bp):
TTGCCTTTGGTTAAAGGAGCATTTTGAATTTAAAGTTCA
Found at i:16030748 original size:79 final size:79
Alignment explanation
Indices: 16030616--16030802 Score: 250
Period size: 79 Copynumber: 2.4 Consensus size: 79
16030606 CCTCTTAGAT
* * * *
16030616 TTTTAACATATAAAGTGTGTTGCCTTTGGTTAAAAGAGCATTTTGAATTTAAAGTTCATTGCCTC
1 TTTTAACATTTAAAGTTTGTTACCTTTGGTTAAAAGAGCATTTTGAATCTAAAGTTCATTGCCTC
*
16030681 TAGTCAAAGGAATC
66 TAGTCAAAGGAACC
* *
16030695 TTTTAACATTTAAAGTTTGTTACCTTTGGTTAAAGGAGCATTTTGAATCTAAAGTTCATTGCCTT
1 TTTTAACATTTAAAGTTTGTTACCTTTGGTTAAAAGAGCATTTTGAATCTAAAGTTCATTGCCTC
* * *
16030760 TGGTGAGAGGAACC
66 TAGTCAAAGGAACC
* **
16030774 TTTTCA-ATTTAAAGTTCATTACCTTTGGT
1 TTTTAACATTTAAAGTTTGTTACCTTTGGT
16030803 CACAGAAGCC
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 21 0.22
79 74 0.78
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.41
Consensus pattern (79 bp):
TTTTAACATTTAAAGTTTGTTACCTTTGGTTAAAAGAGCATTTTGAATCTAAAGTTCATTGCCTC
TAGTCAAAGGAACC
Found at i:16031977 original size:12 final size:12
Alignment explanation
Indices: 16031955--16032006 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
16031945 ATTTCACAAG
* *
16031955 TTTTCCTTTTTC
1 TTTTCCATTTTA
*
16031967 TTTTTCATTTTA
1 TTTTCCATTTTA
16031979 TTTTCCATTTTA
1 TTTTCCATTTTA
16031991 TTTTCCATTTTGA
1 TTTTCCATTTT-A
16032004 TTT
1 TTT
16032007 GATTTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
12 31 0.89
13 4 0.11
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTTCCATTTTA
Found at i:16032507 original size:16 final size:15
Alignment explanation
Indices: 16032479--16032512 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
16032469 TTTAAATAAT
16032479 ATAAAAATAATAAAA
1 ATAAAAATAATAAAA
*
16032494 ATAAAAATACATAATA
1 ATAAAAATA-ATAAAA
16032510 ATA
1 ATA
16032513 GTAATTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAAAATAATAAAA
Found at i:16032671 original size:23 final size:20
Alignment explanation
Indices: 16032641--16032682 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
16032631 CTAAATTTTT
16032641 TAAAAATAATATGATAAAAAAA
1 TAAAAATAATA--ATAAAAAAA
16032663 TAAACAATAATAATAAAAAA
1 TAAA-AATAATAATAAAAAA
16032683 TAATCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (20 bp):
TAAAAATAATAATAAAAAAA
Found at i:16036098 original size:7 final size:8
Alignment explanation
Indices: 16036081--16036105 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16036071 AAAAACCAAA
16036081 TTTATTTT
1 TTTATTTT
16036089 TTTATTTT
1 TTTATTTT
16036097 TTTATTTT
1 TTTATTTT
16036105 T
1 T
16036106 ATCTTGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:16036147 original size:27 final size:27
Alignment explanation
Indices: 16036112--16036175 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
16036102 TTTTATCTTG
*
16036112 TATAT-TTAAGTAAATTTTTT-TATAAA
1 TATATATTAA-TAAATTTTTTCAATAAA
*
16036138 TATATATTAATATATTTTTTCAATAAA
1 TATATATTAATAAATTTTTTCAATAAA
*
16036165 AATATATTAAT
1 TATATATTAAT
16036176 TTTAATTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TATATATTAATAAATTTTTTCAATAAA
Found at i:16037299 original size:20 final size:21
Alignment explanation
Indices: 16037274--16037313 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16037264 TTCTTGATCT
*
16037274 ATTCTATCATGCTT-TCTTCA
1 ATTCTAGCATGCTTCTCTTCA
16037294 ATTCTAGCATGCTTCTCTTC
1 ATTCTAGCATGCTTCTCTTC
16037314 CCTCTCTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.28, G:0.07, T:0.47
Consensus pattern (21 bp):
ATTCTAGCATGCTTCTCTTCA
Found at i:16042330 original size:11 final size:11
Alignment explanation
Indices: 16042316--16042345 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
16042306 TTTTATATTA
16042316 ATAATATAAAT
1 ATAATATAAAT
16042327 ATAATATAAAT
1 ATAATATAAAT
16042338 ATTAATAT
1 A-TAATAT
16042346 TAGTCCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:16043609 original size:17 final size:16
Alignment explanation
Indices: 16043569--16043611 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
16043559 AAATTTTAGA
*
16043569 TATATTTTCTAAAATAT
1 TATATTTT-TAAAAAAT
*
16043586 TAAATTTTTAAAAAATT
1 TATATTTTTAAAAAA-T
16043603 TATATTTTT
1 TATATTTTT
16043612 TATTGTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATTTTTAAAAAAT
Found at i:16043927 original size:20 final size:21
Alignment explanation
Indices: 16043894--16043958 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
16043884 AAAGAAAAGA
*
16043894 AAATTTTTAT-TTTTATATTT
1 AAATTATTATATTTTATATTT
*
16043914 AAATTA-TATATTTTA-AATT
1 AAATTATTATATTTTATATTT
*
16043933 AAATTTATTTTATTTTAT-TTT
1 AAA-TTATTATATTTTATATTT
16043954 AAATT
1 AAATT
16043959 TTTTATTGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 9 0.24
20 15 0.41
21 13 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
AAATTATTATATTTTATATTT
Found at i:16043964 original size:19 final size:19
Alignment explanation
Indices: 16043897--16043965 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 19
16043887 GAAAAGAAAA
16043897 TTTTTATTTTTATATTTAAAT
1 TTTTTA-TTTTAT-TTTAAAT
* * **
16043918 TATATATTTTAAATTAAATT
1 TTTTTATTTTATTTTAAA-T
16043938 TATTTTATTTTATTTTAAAT
1 T-TTTTATTTTATTTTAAAT
16043958 TTTTTATT
1 TTTTTATT
16043966 GTGTTATGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 12 0.32
20 9 0.24
21 17 0.45
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTATTTTATTTTAAAT
Found at i:16047730 original size:38 final size:38
Alignment explanation
Indices: 16047679--16047755 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
16047669 CTCCATTAAC
*
16047679 TAACACCGCTACCCATGCTATAGAAAAACGTTCTCCTA
1 TAACACCGCTACCCATGCTATAGAAAAACATTCTCCTA
*
16047717 TAACACCGCTACCCATGCTATAGAAATACATTCTCCTA
1 TAACACCGCTACCCATGCTATAGAAAAACATTCTCCTA
16047755 T
1 T
16047756 CCATCTCCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.31, G:0.09, T:0.26
Consensus pattern (38 bp):
TAACACCGCTACCCATGCTATAGAAAAACATTCTCCTA
Found at i:16051787 original size:38 final size:39
Alignment explanation
Indices: 16051745--16051835 Score: 150
Period size: 38 Copynumber: 2.4 Consensus size: 39
16051735 GATTGGATGG
16051745 GGTGGGGA-GGATTGGGTGTGGTGGGGCATTGGGGGAAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCATTGGGGGAAA
*
16051783 GGTGGGGAGGGATT-GGTGTGGTGGGGCATTGGGGGGAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGGCATTGGGGGAAA
*
16051821 GGTGGAGAGGGATTG
1 GGTGGGGAGGGATTG
16051836 ATGGGGGTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
38 44 0.90
39 5 0.10
ACGTcount: A:0.15, C:0.02, G:0.62, T:0.21
Consensus pattern (39 bp):
GGTGGGGAGGGATTGGGTGTGGTGGGGCATTGGGGGAAA
Found at i:16052108 original size:20 final size:20
Alignment explanation
Indices: 16052070--16052107 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16052060 GATTGTGTTA
*
16052070 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
16052090 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
16052108 TTTTATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:16052361 original size:26 final size:26
Alignment explanation
Indices: 16052333--16052381 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
16052323 TAAAAAATAA
*
16052333 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
16052358 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
16052382 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:16055788 original size:6 final size:6
Alignment explanation
Indices: 16055779--16055845 Score: 98
Period size: 6 Copynumber: 11.2 Consensus size: 6
16055769 TTTAAGTCTA
* * * *
16055779 GATGAT GATGGT GATGGA GATGGT GATGGA GATGGT GATGGA GATGGT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
16055827 GATGGT GATGGT GATGGT G
1 GATGGT GATGGT GATGGT G
16055846 CAAATTTTGG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.28
Consensus pattern (6 bp):
GATGGT
Found at i:16055845 original size:12 final size:12
Alignment explanation
Indices: 16055785--16055843 Score: 109
Period size: 12 Copynumber: 4.9 Consensus size: 12
16055775 TCTAGATGAT
16055785 GATGGTGATGGA
1 GATGGTGATGGA
16055797 GATGGTGATGGA
1 GATGGTGATGGA
16055809 GATGGTGATGGA
1 GATGGTGATGGA
*
16055821 GATGGTGATGGT
1 GATGGTGATGGA
16055833 GATGGTGATGG
1 GATGGTGATGG
16055844 TGCAAATTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.22, C:0.00, G:0.51, T:0.27
Consensus pattern (12 bp):
GATGGTGATGGA
Found at i:16056211 original size:18 final size:18
Alignment explanation
Indices: 16056188--16056312 Score: 80
Period size: 18 Copynumber: 6.9 Consensus size: 18
16056178 ATGGTTATTA
16056188 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
* **
16056206 TCCACCTCCTCAAATATATTT
1 TCCA---CCTCAAATGTATCC
* *
16056227 TCCACCACAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
16056246 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
*
16056263 TCCA-CTACAAATGTATCA
1 TCCACCT-CAAATGTATCC
*
16056281 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
16056296 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
16056313 AAGAACAAAG
Statistics
Matches: 80, Mismatches: 17, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
15 10 0.12
16 2 0.03
17 2 0.03
18 50 0.62
19 1 0.01
21 15 0.19
ACGTcount: A:0.33, C:0.34, G:0.05, T:0.29
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:16056298 original size:33 final size:34
Alignment explanation
Indices: 16056212--16056313 Score: 109
Period size: 33 Copynumber: 3.0 Consensus size: 34
16056202 ATCCTCCACC
** *
16056212 TCCTCAAATATATTTTCCACCACAAATGTATCAG
1 TCCTCAAATATATCCTCCACTACAAATGTATCAG
* * *
16056246 TTACCACAAATGTACCCTCCACTACAAATGTATCA-
1 -T-CCTCAAATATATCCTCCACTACAAATGTATCAG
16056281 TCCTCAAATATATCCTCCACCT-CAAATGTATCA
1 TCCTCAAATATATCCTCCA-CTACAAATGTATCA
16056314 AGAACAAAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
33 26 0.46
34 3 0.05
35 1 0.02
36 26 0.46
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.29
Consensus pattern (34 bp):
TCCTCAAATATATCCTCCACTACAAATGTATCAG
Found at i:16060956 original size:4 final size:4
Alignment explanation
Indices: 16060947--16060972 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
16060937 TATTATTATT
16060947 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
16060973 CTTAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:16061456 original size:11 final size:11
Alignment explanation
Indices: 16061440--16061469 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
16061430 TGAATTCAGG
16061440 ATTTTTTGAAA
1 ATTTTTTGAAA
*
16061451 ATTTTTTAAAA
1 ATTTTTTGAAA
16061462 ATTTTTTG
1 ATTTTTTG
16061470 GGTCGACGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (11 bp):
ATTTTTTGAAA
Found at i:16062162 original size:19 final size:17
Alignment explanation
Indices: 16062130--16062168 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
16062120 TAATTTTTGC
*
16062130 TAAAAAAATAAAAATGA
1 TAAAAAAATAAAAATAA
16062147 TAAATAAAATAAAAAATAA
1 TAAA-AAAAT-AAAAATAA
16062166 TAA
1 TAA
16062169 GTTGTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAAAATAAAAATAA
Found at i:16062328 original size:3 final size:3
Alignment explanation
Indices: 16062320--16062359 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
16062310 GGTTTATTTA
*
16062320 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
16062360 TGATATGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16062650 original size:50 final size:52
Alignment explanation
Indices: 16062587--16062697 Score: 129
Period size: 50 Copynumber: 2.2 Consensus size: 52
16062577 ATGATTCTTA
* * *
16062587 TTTAGGATGTCGTCAAAAAATTGAGATAAT-TTAAAAATTTGTTCAA-A-ATT
1 TTTAGAATTTCGTCAAAAAATCGAGATAATCTT-AAAATTTGTTCAATAGATT
* * *
16062637 TTTAGAATTTCGTCAAAGAGTCGAGATAATCTTAAAATTTGTTTAATAGATT
1 TTTAGAATTTCGTCAAAAAATCGAGATAATCTTAAAATTTGTTCAATAGATT
*
16062689 TTAAGAATT
1 TTTAGAATT
16062698 CATGAAAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
50 37 0.73
51 3 0.06
52 11 0.22
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (52 bp):
TTTAGAATTTCGTCAAAAAATCGAGATAATCTTAAAATTTGTTCAATAGATT
Found at i:16072205 original size:58 final size:58
Alignment explanation
Indices: 16072136--16072705 Score: 568
Period size: 58 Copynumber: 9.7 Consensus size: 58
16072126 TTGTGCAGAA
* * *
16072136 AAAATTAATACTTTCAACTTTTCTCCAAAAATATTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
* *** **
16072194 AAAATTGATACTTTCAACTTTTCT-TAAAAA-ATCCCTTTGAAAATTT-ATCTTTAAGG
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAATTTAAT-TTCGAGG
* *
16072250 AAAATTGATACTTTTAACTTTTCTCCAAAAATA-TTTTTTGAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAA-TTTAATTTCGAGG
* * ** *
16072308 AAAATTGATACTTTCAACTTTTC-CTCAAAATCTCTTTTTTTGAAAATTT-ATTTTTAAG
1 AAAATTGATACTTTCAACTTTTCTC-CAAAA-ATATTTTTTTGAAAATTTAATTTCGAGG
* * *
16072366 AAAATTGACACTTTCAACTTTTTTCCAAAAATA-TTTTTTGAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAA-TTTAATTTCGAGG
* * **
16072424 AAAATTGATACTTTCAACTTTTC-CTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCTC-CAAAAA--TATTTTTTTGAAAATTTAATTTCGAGG
*
16072484 AAAATTGATACTTTCAACTTTT-TCCCAAAAATA-TTTTTTGAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCT-CCAAAAATATTTTTTTGAAAA-TTTAATTTCGAGG
* * * * * ** *
16072542 AAAATTGATACTTTCAACTTTTTTTCAAAAAAACTTTTTTTAAAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTT-GAAAATTTAATTTCGAGG
** * *
16072602 AAAATTGATACTTTCAACTTTCCTCTAAAAAAATATATATTTTTTTAAATTCTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTT--TCT-CCAAAA-ATAT-TTTTTTGAAAAT-TTAATTTCGAGG
16072666 AAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTT
16072706 TGTTTTATTT
Statistics
Matches: 423, Mismatches: 60, Indels: 57
0.78 0.11 0.11
Matches are distributed among these distances:
55 2 0.00
56 52 0.12
57 35 0.08
58 160 0.38
59 14 0.03
60 90 0.21
61 20 0.05
62 4 0.01
63 9 0.02
64 37 0.09
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
Found at i:16072550 original size:118 final size:118
Alignment explanation
Indices: 16072136--16072706 Score: 757
Period size: 118 Copynumber: 4.8 Consensus size: 118
16072126 TTGTGCAGAA
* *
16072136 AAAATTAATACTTTCAAC-TTTTCTCCAAAAATATTCTTTTG-AAACTTTAATTTCGAGGAAAAT
1 AAAATTGATACTTTCAACTTTTTC-CCAAAAATATT-TTTTGAAAACTTTAATTTCGAGAAAAAT
* * ** *
16072199 TGATACTTTCAACTTTTCTTAAAAAATC----CCTTTGAAAATTTATCTTTAAGG
64 TGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
*
16072250 AAAATTGATACTTTTAAC-TTTTCTCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAACTTTTTC-CCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATT
*
16072314 GATACTTTCAACTTTTCCTC-AAAATCTCTTTTTTTGAAAATTTATTTTTAA-G
65 GATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
* *
16072366 AAAATTGACACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTG
16072431 ATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
66 ATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
16072484 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTG
** * ** *
16072549 ATACTTTCAACTTTTTTTCAAAAAAAC-TTTTTTTAAAAAATTTATTTTTAAGA
66 ATACTTTCAACTTTTCCTC-AAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
*** ** * *
16072602 AAAATTGATACTTTCAACTTTCCTCTAAAAAAATATATATTTTTTTAAATTCTTAATTTCGAGGA
1 AAAATTGATACTTTCAACTTT--T-TCCCAAAA-ATAT-TTTTTGAAAACT-TTAATTTCGAGAA
*
16072667 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
60 AAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTT
16072707 GTTTTATTTA
Statistics
Matches: 410, Mismatches: 31, Indels: 22
0.89 0.07 0.05
Matches are distributed among these distances:
113 11 0.03
114 73 0.18
116 77 0.19
117 52 0.13
118 125 0.30
119 6 0.01
120 1 0.00
121 5 0.01
122 4 0.01
123 14 0.03
124 42 0.10
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
Found at i:16072578 original size:16 final size:15
Alignment explanation
Indices: 16072557--16072588 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
16072547 TGATACTTTC
16072557 AACTTTTTTTCAAAAA
1 AACTTTTTTT-AAAAA
16072573 AACTTTTTTTAAAAA
1 AACTTTTTTTAAAAA
16072588 A
1 A
16072589 TTTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
AACTTTTTTTAAAAA
Found at i:16072596 original size:15 final size:14
Alignment explanation
Indices: 16072557--16072604 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 14
16072547 TGATACTTTC
16072557 AACTTTTTTTCAAAAA
1 AACTTTTTTT--AAAA
16072573 AACTTTTTTTAAAA
1 AACTTTTTTTAAAA
*
16072587 AATTTATTTTTAAGAA
1 AACTT-TTTTTAA-AA
16072603 AA
1 AA
16072605 ATTGATACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.28
15 7 0.24
16 14 0.48
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (14 bp):
AACTTTTTTTAAAA
Found at i:16072738 original size:9 final size:9
Alignment explanation
Indices: 16072721--16072851 Score: 65
Period size: 9 Copynumber: 14.2 Consensus size: 9
16072711 TATTTAAAGA
*
16072721 AAATGAAAT
1 AAATAAAAT
16072730 AAATAAAAT
1 AAATAAAAT
16072739 AAATAAAAAT
1 AAAT-AAAAT
16072749 AAATAAAAT
1 AAATAAAAT
16072758 GAAA-ATAAAT
1 -AAATA-AAAT
*
16072768 AAAAAAAAGT
1 AAATAAAA-T
* *
16072778 AGA-AAAAG
1 AAATAAAAT
16072786 AAA-AAAAT
1 AAATAAAAT
* * *
16072794 ATATTAAAC
1 AAATAAAAT
* *
16072803 AACCT-TAAT
1 AA-ATAAAAT
*
16072812 ATACTAATAAT
1 A-AATAA-AAT
16072823 AAATAAAAT
1 AAATAAAAT
16072832 AAAT-AAAT
1 AAATAAAAT
16072840 AAATAATAAT
1 AAATAA-AAT
16072850 AA
1 AA
16072852 TAATTAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
8 16 0.17
9 45 0.47
10 31 0.32
11 4 0.04
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:16072750 original size:15 final size:14
Alignment explanation
Indices: 16072721--16072861 Score: 62
Period size: 13 Copynumber: 9.9 Consensus size: 14
16072711 TATTTAAAGA
*
16072721 AAATGAAATAAATA-
1 AAAT-AAATAAAAAT
16072735 AAATAAATAAAAAT
1 AAATAAATAAAAAT
*
16072749 AAATAAAATGAAAAT
1 AAAT-AAATAAAAAT
16072764 AAATAAA-AAAAAGT
1 AAATAAATAAAAA-T
*
16072778 AGAA-AAA-GAAAA-
1 A-AATAAATAAAAAT
*
16072790 AAATATATTAAACAACCT
1 AAATA-AATAAA-AA--T
* * *
16072808 TAATATACTAATAAT
1 AAATA-AATAAAAAT
*
16072823 AAATAAA-ATAAAT
1 AAATAAATAAAAAT
*
16072836 AAATAAATAATAAT
1 AAATAAATAAAAAT
*
16072850 -AATAATTAAAAA
1 AAATAAATAAAAA
16072862 AAAAACCTTG
Statistics
Matches: 98, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
11 2 0.02
12 2 0.02
13 34 0.35
14 27 0.28
15 22 0.22
17 2 0.02
18 9 0.09
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.23
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:16072750 original size:19 final size:19
Alignment explanation
Indices: 16072726--16072794 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
16072716 AAAGAAAATG
16072726 AAATAAATAAAAT-AAATAA
1 AAATAAATAAAATGAAA-AA
*
16072745 AAATAAATAAAATGAAAAT
1 AAATAAATAAAATGAAAAA
*
16072764 AAATAAAAAAAAGTAGAAAAA
1 AAATAAATAAAA-T-GAAAAA
*
16072785 GAAAAAAATA
1 -AAATAAATA
16072795 TATTAAACAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 25 0.61
20 4 0.10
21 5 0.12
22 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (19 bp):
AAATAAATAAAATGAAAAA
Found at i:16072762 original size:6 final size:5
Alignment explanation
Indices: 16072720--16072775 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
16072710 TTATTTAAAG
*
16072720 AAAAT GAAAT -AAAT AAAAT -AAAT AAAA- ATAAAT AAAAT GAAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT -AAAAT AAAAT
16072768 AAAA- AAAA
1 AAAAT AAAA
16072776 GTAGAAAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
4 17 0.39
5 21 0.48
6 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:16073400 original size:14 final size:13
Alignment explanation
Indices: 16073380--16073420 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
16073370 TTCTAGAAAT
16073380 TTCCAAAAAAAAA
1 TTCCAAAAAAAAA
*
16073393 TT-CACAAAAAAA
1 TTCCAAAAAAAAA
16073405 TCTCCAAAAAAAAA
1 T-TCCAAAAAAAAA
16073419 TT
1 TT
16073421 TTCTCGATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 10 0.42
13 4 0.17
14 10 0.42
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (13 bp):
TTCCAAAAAAAAA
Found at i:16073725 original size:20 final size:21
Alignment explanation
Indices: 16073672--16073744 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 21
16073662 CTTTAGCCGA
*
16073672 ATAAATCAAAAAAATAAA-A-
1 ATAAATTAAAAAAATAAATAG
*
16073691 A-AAATCAAATGAAAATAAATCAG
1 ATAAATTAAA--AAAATAAAT-AG
*
16073714 ATAAA-TAAAAAAATTAATAG
1 ATAAATTAAAAAAATAAATAG
16073734 ATAAATTAAAA
1 ATAAATTAAAA
16073745 TTAGATAACA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
18 8 0.18
19 1 0.02
20 15 0.33
21 13 0.29
22 1 0.02
23 4 0.09
24 3 0.07
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (21 bp):
ATAAATTAAAAAAATAAATAG
Found at i:16073877 original size:11 final size:11
Alignment explanation
Indices: 16073861--16073935 Score: 50
Period size: 11 Copynumber: 6.9 Consensus size: 11
16073851 AGTAGTAATA
16073861 AATAAATAAAT
1 AATAAATAAAT
*
16073872 AATAAATACAT
1 AATAAATAAAT
*
16073883 AAGAAA-AAAT
1 AATAAATAAAT
* *
16073893 AAAAGAAAAAAT
1 AATA-AATAAAT
*
16073905 ATATAAAAACAAT
1 A-ATAAATA-AAT
16073918 AAT-AA-AAAT
1 AATAAATAAAT
16073927 AA-AAATAAA
1 AATAAATAAA
16073936 ATAAAAGTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
9 7 0.13
10 10 0.19
11 19 0.36
12 11 0.21
13 6 0.11
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:16073936 original size:11 final size:11
Alignment explanation
Indices: 16073887--16073971 Score: 50
Period size: 11 Copynumber: 7.4 Consensus size: 11
16073877 ATACATAAGA
*
16073887 AAAAATAAAAG
1 AAAAATAAAAT
*
16073898 AAAAA-ATATAT
1 AAAAATA-AAAT
*
16073909 AAAAACAATAAT
1 AAAAATAA-AAT
16073921 AAAAATAAAA-
1 AAAAATAAAAT
16073931 ATAAAATAAAAGTGT
1 A-AAAATAAAA---T
*
16073946 AAAAATACAAAA
1 AAAAATA-AAAT
16073958 AAAAATAAAA-
1 AAAAATAAAAT
16073968 AAAA
1 AAAA
16073972 GAAAATAGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
10 6 0.10
11 27 0.45
12 17 0.28
14 6 0.10
15 4 0.07
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:16073970 original size:45 final size:44
Alignment explanation
Indices: 16073808--16073978 Score: 107
Period size: 45 Copynumber: 3.7 Consensus size: 44
16073798 TAACAGACAA
** * * *
16073808 AAAAATAAAAATAAAAATAATAAGGATATATATATTAATAAATAGTAGT
1 AAAAATAAAAA-AAAAATAA-AAAAATAAAAATA-AAATAAA-AGT-GT
* * * * * *
16073857 AATAAATAAATAAATAATAAATACATAAGAA-AAAATAAAA--GA
1 AA-AAATAAAAAAAAAATAAAAAAATAAAAATAAAATAAAAGTGT
*
16073899 AAAAATATATAAAAACAATAATAAAAATAAAAATAAAATAAAAGTGT
1 AAAAATA-A-AAAAAAAATAA-AAAAATAAAAATAAAATAAAAGTGT
16073946 AAAAATACAAAAAAAAATAAAAAAA-AGAAAATA
1 AAAAATA-AAAAAAAAATAAAAAAATA-AAAATA
16073979 GACTTACCTA
Statistics
Matches: 96, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
41 5 0.05
42 4 0.04
43 9 0.09
44 9 0.09
45 21 0.22
46 16 0.17
47 10 0.10
48 5 0.05
49 9 0.09
50 8 0.08
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (44 bp):
AAAAATAAAAAAAAAATAAAAAAATAAAAATAAAATAAAAGTGT
Found at i:16074235 original size:36 final size:37
Alignment explanation
Indices: 16074181--16074377 Score: 121
Period size: 41 Copynumber: 5.0 Consensus size: 37
16074171 AGAGGCTCAA
* * *
16074181 CGACTTTGGAAAAATAAATGGCTTCTTTAATCAGAGG
1 CGACTTTGGAAAAATAAATGGCTCCTCTAAACAGAGG
* *
16074218 CGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
1 CGACTTTGGAAAAATAAATGGCTCCTCTAAACAGAGG
* * **
16074254 CAGCACGATTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCAG
1 C-G-AC--TTTGGAAAAATAAATGGCTCCTCTAAACAGA-G--G
* *
16074298 CACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG
1 --CGACTTTGGAAAAATAAATGGCTCCTCTAAACAGAGG
* **
16074336 CACCACGACTTT-GAAAAGTAAATTACTCCTCTAAACAGAGG
1 -----CGACTTTGGAAAAATAAATGGCTCCTCTAAACAGAGG
16074377 C
1 C
16074378 ACCACGACTT
Statistics
Matches: 139, Mismatches: 8, Indels: 27
0.80 0.05 0.16
Matches are distributed among these distances:
36 26 0.19
37 8 0.06
38 3 0.02
40 4 0.03
41 89 0.64
42 4 0.03
44 3 0.02
45 1 0.01
46 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (37 bp):
CGACTTTGGAAAAATAAATGGCTCCTCTAAACAGAGG
Found at i:16074283 original size:41 final size:41
Alignment explanation
Indices: 16074218--16074393 Score: 307
Period size: 41 Copynumber: 4.3 Consensus size: 41
16074208 TAATCAGAGG
* *
16074218 CGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAGCA
1 CGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCA
* *
16074259 CGATTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCAGCA
1 CGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCA
*
16074300 CGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 CGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCA
16074341 CGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCA
1 CGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCA
16074382 CGACTTTGAAAA
1 CGACTTTGAAAA
16074394 TCCACGACTT
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
CGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCA
Found at i:16074400 original size:16 final size:16
Alignment explanation
Indices: 16074379--16074409 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16074369 AACAGAGGCA
16074379 CCACGACTTTGAAAAT
1 CCACGACTTTGAAAAT
16074395 CCACGACTTTGAAAA
1 CCACGACTTTGAAAA
16074410 GTAAATTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (16 bp):
CCACGACTTTGAAAAT
Found at i:16074426 original size:57 final size:57
Alignment explanation
Indices: 16074338--16074450 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
16074328 AACAGAGGCA
16074338 CCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAT
1 CCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAT
*
16074395 CCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAA
1 CCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAA
16074451 GTAAATTGCT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (57 bp):
CCACGACTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAT
Found at i:16085915 original size:27 final size:27
Alignment explanation
Indices: 16085885--16085974 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
16085875 TTTGTGCAGG
16085885 AAAAATTGATACTTTCAACTTTTTCCC
1 AAAAATTGATACTTTCAACTTTTTCCC
* * * *
16085912 AAAAA-T-ATTCTTTTGAAACTTTAATTTCG
1 AAAAATTGATAC-TTT-CAACTTT--TTCCC
16085941 AGAAAATTGATACTTTCAAC-TTTTCCTC
1 A-AAAATTGATACTTTCAACTTTTTCC-C
16085969 AAAAAT
1 AAAAAT
16085975 CCCTTTGAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
25 3 0.06
26 4 0.09
27 19 0.40
28 1 0.02
29 6 0.13
30 7 0.15
31 4 0.09
32 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCCC
Found at i:16085947 original size:57 final size:57
Alignment explanation
Indices: 16085886--16086510 Score: 534
Period size: 58 Copynumber: 10.7 Consensus size: 57
16085876 TTGTGCAGGA
* *
16085886 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTCTTTTGAAACTTTAATTTCGA-G
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
*** **
16085943 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATCCCTTTGAAAATTT-ATCTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAAATTTAAT-TTCGAGG
*
16085999 AAAATTGATACTTTCAACTTTTTCCCAAAAA-ATTTTTTTGAAAACTTTAATTTTGAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAAA-TTTAATTTCGAGG
* * * **
16086057 AAAATTGATACTTTCAACTTTTCCTCAAAATCCTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAA--ATATTTTTTTGAAAATTTAATTTCGAGG
* * * *
16086117 AAAATTGACACTTTCAATTTTTTCCCAAAAATA-TTTTTTCAAAAGTTTAATTTCGAGA
1 AAAATTGATACTTTCAA-CTTTTCCCAAAAATATTTTTTTGAAAA-TTTAATTTCGAGG
* * * * * **
16086175 AAAATTAATACTTTTAACTTTTTCTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAA--TATTTTTTTGAAAATTTAATTTCGAGG
* *
16086235 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGGAAACTTTAA-TTCGAGG
1 AAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGAAAATTTAATTTCGAGG
* ** ** * ** **
16086292 AAAATTGATACTTTCAACTTTT-CC-TAAACCTTTTTTAAAAAATTTATTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
* *
16086347 AAAATTGATACTTTCAAC-TTTCCTCTAAAAATATTTTTTTTTGAAATTCTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCC-C-AAAAATA--TTTTTTTGAAAAT-TTAATTTCGAGG
* * * * **
16086408 AAAATTGATATTTTCAACTTTTCCTTAAAAAAAAATCTTTTTTTTGATAATTT-ATTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-----CAAAAAT-ATTTTTTTGAAAATTTAATT-TCGAGG
16086471 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTT
16086511 TTGTTTTATT
Statistics
Matches: 459, Mismatches: 76, Indels: 65
0.76 0.13 0.11
Matches are distributed among these distances:
54 21 0.05
55 38 0.08
56 33 0.07
57 82 0.18
58 92 0.20
59 14 0.03
60 73 0.16
61 53 0.12
62 8 0.02
63 28 0.06
64 11 0.02
65 6 0.01
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTAATTTCGAGG
Found at i:16086142 original size:118 final size:117
Alignment explanation
Indices: 16085886--16086510 Score: 740
Period size: 118 Copynumber: 5.3 Consensus size: 117
16085876 TTGTGCAGGA
*
16085886 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTCTTTTGAAACTTTAATTTCGA-GAAAATTG
1 AAAATTGATACTTTCAA-TTTTTCCCAAAAATATTTTTTTGAAACTTTAATTTCGAGGAAAATTG
* *
16085950 ATACTTTCAACTTTTCCTCAAAAATCC-----CTTTGAAAATTTATCTTTAAGG
65 ATACTTTCAACTTTTCCTC-AAAATCCTTTTTTTTTGAAAATTTATTTTTAAGG
*
16085999 AAAATTGATACTTTCAACTTTTTCCCAAAAA-ATTTTTTTGAAAACTTTAATTTTGAGGAAAATT
1 AAAATTGATACTTTCAA-TTTTTCCCAAAAATATTTTTTTG-AAACTTTAATTTCGAGGAAAATT
16086063 GATACTTTCAACTTTTCCTCAAAATCCTTTTTTTTTGAAAATTTATTTTTAAGG
64 GATACTTTCAACTTTTCCTCAAAATCCTTTTTTTTTGAAAATTTATTTTTAAGG
* ** * * *
16086117 AAAATTGACACTTTCAATTTTTTCCCAAAAATATTTTTTCAAAAGTTTAATTTCGAGAAAAATTA
1 AAAATTGATACTTTCAA-TTTTTCCCAAAAATATTTTTTTGAAACTTTAATTTCGAGGAAAATTG
* *
16086182 ATACTTTTAACTTTTTCTCAAAAAT-CTTTTTTTTTGAAAATTTATTTTTAAGG
65 ATACTTTCAACTTTTCCTC-AAAATCCTTTTTTTTTGAAAATTTATTTTTAAGG
* *
16086235 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGGAAACTTTAA-TTCGAGGAAAATTG
1 AAAATTGATACTTTCAATTTTTCCC-AAAAATATTTTTTTGAAACTTTAATTTCGAGGAAAATTG
** **
16086299 ATACTTTCAACTTTTCCT--AAA-CC--TTTTTTAAAAAATTTATTTTTAAAA
65 ATACTTTCAACTTTTCCTCAAAATCCTTTTTTTTTGAAAATTTATTTTTAAGG
* * *
16086347 AAAATTGATACTTTCAA-CTTTCCTCTAAAAATATTTTTTTTTGAAATTCTTAATTTCGAGAAAA
1 AAAATTGATACTTTCAATTTTTCC-C-AAAAATA--TTTTTTTGAAACT-TTAATTTCGAGGAAA
* * *** * *
16086411 ATTGATATTTTCAACTTTTCCTTAAAAAAAAATCTTTTTTTTGATAATTTATTCTTAAGG
61 ATTGATACTTTCAACTTTTCC-T-CAAAATCCT-TTTTTTTTGAAAATTTATTTTTAAGG
*
16086471 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAATTTTTCC-CAAAAATATTTTTTT
16086511 TTGTTTTATT
Statistics
Matches: 445, Mismatches: 42, Indels: 41
0.84 0.08 0.08
Matches are distributed among these distances:
111 5 0.01
112 54 0.12
113 52 0.12
114 42 0.09
115 4 0.01
116 29 0.07
117 36 0.08
118 151 0.34
119 12 0.03
120 3 0.01
122 7 0.02
124 43 0.10
125 7 0.02
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (117 bp):
AAAATTGATACTTTCAATTTTTCCCAAAAATATTTTTTTGAAACTTTAATTTCGAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAATCCTTTTTTTTTGAAAATTTATTTTTAAGG
Found at i:16086478 original size:63 final size:60
Alignment explanation
Indices: 16086331--16086530 Score: 189
Period size: 63 Copynumber: 3.3 Consensus size: 60
16086321 CTTTTTTAAA
* *
16086331 AAATTTATTTTTAAAAAAAATTGATACTTTCAAC-TTTCCTCT--AAAAATATTTTTTTTTG
1 AAATTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTCCT-TAAAAAAAAATTTTTTTTTG
** *
16086390 AAATTCTTAATTTCGAGAAAAATTGATATTTTCAACTTTTCCTTAAAAAAAAATCTTTTTTTTG
1 AAA-T-TT-ATTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAAAAT-TTTTTTTTG
* * *
16086454 ATAATTTATTCTTAAGGAAAATTGATACTTTCAACTTTTCC-T-CAAAAATATTTTTTTTTG
1 A-AATTTATT-TTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAAAATTTTTTTTTG
* *
16086514 --TTTTATTTAAAGAAAAA
1 AAATTTATTTTAAGAAAAA
16086531 GAAATAAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
56 8 0.07
57 6 0.05
59 3 0.03
60 10 0.08
61 32 0.27
62 11 0.09
63 35 0.30
64 11 0.09
65 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (60 bp):
AAATTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAAAATTTTTTTTTG
Found at i:16086556 original size:15 final size:14
Alignment explanation
Indices: 16086532--16086581 Score: 66
Period size: 15 Copynumber: 3.6 Consensus size: 14
16086522 AAAGAAAAAG
*
16086532 AAATAAATA-AAAT
1 AAATAAAAATAAAT
16086545 AAATAAAAATAAAT
1 AAATAAAAATAAAT
*
16086559 AAAATGAAAATAAAT
1 -AAATAAAAATAAAT
16086574 AAATAAAA
1 AAATAAAA
16086582 TGAAAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.25
14 11 0.34
15 13 0.41
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:16086556 original size:19 final size:19
Alignment explanation
Indices: 16086525--16086597 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
16086515 TTTATTTAAA
16086525 GAAAAAGAAATAAATAAAAT
1 GAAAAA-AAATAAATAAAAT
16086545 -AAATAAAAATAAATAAAAT
1 GAAA-AAAAATAAATAAAAT
*
16086564 GAAAATAAATAAATAAAAT
1 GAAAAAAAATAAATAAAAT
16086583 GAAAAAGAAA-AAATA
1 GAAAAA-AAATAAATA
16086598 TATATTAAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
19 40 0.83
20 8 0.17
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (19 bp):
GAAAAAAAATAAATAAAAT
Found at i:16086642 original size:18 final size:18
Alignment explanation
Indices: 16086614--16086651 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
16086604 AAACGACCCT
16086614 AATATAATAATAATAAATA
1 AATATAATAATAAT-AATA
16086633 AATA-AATAATAATAATA
1 AATATAATAATAATAATA
16086650 AA
1 AA
16086652 AAAAACCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 9 0.47
19 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATAATAATAATAATA
Found at i:16087529 original size:20 final size:21
Alignment explanation
Indices: 16087506--16087565 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
16087496 AAATCAAATG
16087506 AAAATAAATCAGATAAATCAA
1 AAAATAAATCAGATAAATCAA
* *
16087527 AAAATTAA-CAGATAAAT-TA
1 AAAATAAATCAGATAAATCAA
*
16087546 AAATTAAATAACAGATAAAT
1 AAAATAAAT--CAGATAAAT
16087566 TATAACATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 7 0.22
20 9 0.28
21 7 0.22
22 9 0.28
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATAAATCAGATAAATCAA
Found at i:16087545 original size:12 final size:12
Alignment explanation
Indices: 16087528--16087567 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
16087518 ATAAATCAAA
16087528 AAATTAACAGAT
1 AAATTAACAGAT
16087540 AAATTAA-A-ATT
1 AAATTAACAGA-T
16087551 AAA-TAACAGAT
1 AAATTAACAGAT
16087562 AAATTA
1 AAATTA
16087568 TAACATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (12 bp):
AAATTAACAGAT
Found at i:16087560 original size:22 final size:20
Alignment explanation
Indices: 16087476--16087567 Score: 71
Period size: 22 Copynumber: 4.4 Consensus size: 20
16087466 CTTCAGTCGA
*
16087476 ATAAATCAAAAAAATAA-A-
1 ATAAATTAAAAAAATAACAG
* *
16087494 AAAAATCAAATGAAAATAAATCAG
1 ATAAATTAAA--AAAAT-AA-CAG
* *
16087518 ATAAATCAAAAAATTAACAG
1 ATAAATTAAAAAAATAACAG
16087538 ATAAATTAAAATTAAATAACAG
1 ATAAATTAAAA--AAATAACAG
16087560 ATAAATTA
1 ATAAATTA
16087568 TAACATATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
18 9 0.15
20 18 0.30
21 4 0.07
22 20 0.33
23 1 0.02
24 9 0.15
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (20 bp):
ATAAATTAAAAAAATAACAG
Found at i:16087631 original size:3 final size:3
Alignment explanation
Indices: 16087613--16087744 Score: 61
Period size: 3 Copynumber: 41.7 Consensus size: 3
16087603 AACAGAAAAA
* * * * * * *
16087613 AAT AAA AAT AAA AAT AAT AAG GAT -AT ATAT ATT AAT AAAT AGT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT
* * *
16087659 AAT AAAT AAAT AAAT AAT AAAT ACAT AA- GAT AAA AAT AAA AAT ATAT
1 AAT -AAT -AAT -AAT AAT -AAT A-AT AAT AAT AAT AAT AAT AAT A-AT
* *
16087706 ATAT AAA AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16087745 AAGTGTAAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
2 3 0.03
3 68 0.67
4 30 0.30
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:16087631 original size:15 final size:15
Alignment explanation
Indices: 16087608--16087779 Score: 55
Period size: 15 Copynumber: 10.9 Consensus size: 15
16087598 ATATTAACAG
16087608 AAAAA-AATAAAAAT
1 AAAAATAATAAAAAT
**
16087622 AAAAATAATAAGGAT
1 AAAAATAATAAAAAT
* * *
16087637 ATATATATTAATAAAT
1 AAAAATAATAA-AAAT
** *
16087653 AGTAGTAATAAATAAAT
1 AAAAATAAT-AA-AAAT
16087670 AAATAATAAATACATAAGAT
1 AAA-AAT-AATA-A-AA-AT
*
16087690 AAAAATAA-AAATAT
1 AAAAATAATAAAAAT
* *
16087704 ATATATAA-AAACAAT
1 AAAAATAATAAA-AAT
* *
16087719 AATAATAATAATAAT
1 AAAAATAATAAAAAT
* *
16087734 AATAATAATAAAAGTGT
1 AAAAATAATAAAA--AT
*
16087751 AAAAAT-ATAAAAAA
1 AAAAATAATAAAAAT
*
16087765 AATAAAAAATAAAAA
1 AA-AAATAATAAAAA
16087780 AGAAAATAGA
Statistics
Matches: 116, Mismatches: 29, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
14 18 0.16
15 41 0.35
16 22 0.19
17 15 0.13
18 5 0.04
19 10 0.09
20 5 0.04
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (15 bp):
AAAAATAATAAAAAT
Found at i:16087699 original size:6 final size:6
Alignment explanation
Indices: 16087666--16087779 Score: 54
Period size: 6 Copynumber: 18.5 Consensus size: 6
16087656 AGTAATAAAT
* * * *
16087666 AAATAA ATAATAA ATACAT-A AGATAA AAATAA AAATAT ATATAT AAA-AA
1 AAATAA A-AATAA A-A-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* * * * * * *
16087715 CAATAA TAATAA TAATAA TAATAA TAATAA AAGTGTAA AAATAT AAA-AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA--ATAA AAATAA AAATAA
16087764 AAATAAA AAATAA AAA
1 AAAT-AA AAATAA AAA
16087780 AGAAAATAGA
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
5 9 0.10
6 55 0.63
7 16 0.18
8 7 0.08
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.24
Consensus pattern (6 bp):
AAATAA
Found at i:16087772 original size:18 final size:19
Alignment explanation
Indices: 16087751--16087787 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
16087741 ATAAAAGTGT
*
16087751 AAAAATATAAAA-AAAATA
1 AAAAATAAAAAAGAAAATA
16087769 AAAAATAAAAAAGAAAATA
1 AAAAATAAAAAAGAAAATA
16087788 GACTTATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (19 bp):
AAAAATAAAAAAGAAAATA
Found at i:16090768 original size:41 final size:40
Alignment explanation
Indices: 16090699--16090778 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
16090689 AACCTTTTGA
* *
16090699 ATTTAAAGTTCATTGCCTCTGGTTAGAGGAG-TGTTTTAAC
1 ATTTAAAGTTCATAGCCTCTGGTCAGAGGAGCT-TTTTAAC
* *
16090739 ATTTAAAGTTTTATAGCTTCTGGTCAGAGGAGCTTTTTAA
1 ATTTAAAG-TTCATAGCCTCTGGTCAGAGGAGCTTTTTAA
16090779 TTTTAAAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 8 0.24
41 25 0.74
42 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.41
Consensus pattern (40 bp):
ATTTAAAGTTCATAGCCTCTGGTCAGAGGAGCTTTTTAAC
Found at i:16090928 original size:33 final size:32
Alignment explanation
Indices: 16090880--16090942 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
16090870 ACATAAAAAG
* *
16090880 TTTGTTGCCTTTAGTTAAAAGAGCCATTTAAAT
1 TTTGTTACCTCTAGTTAAAA-AGCCATTTAAAT
* *
16090913 TTTGTTACCTCTAGTTAGAAAGCCTTTTAA
1 TTTGTTACCTCTAGTTAAAAAGCCATTTAA
16090943 CACTTAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 9 0.35
33 17 0.65
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (32 bp):
TTTGTTACCTCTAGTTAAAAAGCCATTTAAAT
Found at i:16090986 original size:72 final size:76
Alignment explanation
Indices: 16090876--16091084 Score: 212
Period size: 79 Copynumber: 2.7 Consensus size: 76
16090866 TTTAACATAA
* * * * * *
16090876 AAAGTTTGTTGCCTTTAGTTAAAAGAGCCA-TTTAAATTT-TGTT-A-CCTCTAGTTAGA-AAGC
1 AAAGTTTGTTGCCTTTGGTTAAAGGAG-CATTTTGAATTTAAGTTCATCCTCTAGTCAAAGAAGC
*
16090936 CTTTTAACACTT
65 ATTTTAACACTT
*
16090948 AAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTGAATTTAAAGTTCATTGTCTCTAGTCAAAGAA
1 AAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTGAATTT-AAGTTCA-T-CCTCTAGTCAAAGAA
*
16091013 GCATTTTAACATTT
63 GCATTTTAACACTT
* * *
16091027 AAAGTTTATTGCCTCTGGTTAAAGGAGCATTTTGAATCTAAAGTTCATTACCTCTAGT
1 AAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTGAAT-TTAAGTTCA-T-CCTCTAGT
16091085 GAGATGAGCT
Statistics
Matches: 114, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
71 2 0.02
72 33 0.29
74 3 0.03
75 1 0.01
78 9 0.08
79 65 0.57
80 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (76 bp):
AAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTGAATTTAAGTTCATCCTCTAGTCAAAGAAGCA
TTTTAACACTT
Found at i:16090989 original size:39 final size:39
Alignment explanation
Indices: 16090946--16091187 Score: 180
Period size: 39 Copynumber: 6.1 Consensus size: 39
16090936 CTTTTAACAC
* *
16090946 TTAAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTTGAAT
1 TTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTTGAAT
* * * * * *
16090985 TTAAAGTTCATTGTCTCTAGTCAAAGAAGCATTTTAACAT
1 TTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTTGA-AT
16091025 TTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTTGAAT
1 TTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTTGAAT
* * * * * * * *
16091064 CTAAAGTTCATTACCTCTAGTGAGATGAGCTTTTTGAAT
1 TTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTTGAAT
* * * * * * * * *
16091103 TTAAAGTATGTTACCTTTGGTCAGAGAAGCCTTTTAACAT
1 TTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTTGA-AT
* * * *
16091143 TCAAACTTTCATTGCCTTTGGTTAAAGGAGTC-TTTTGATT
1 TTAAAGTTT-ATTGCCTCTGGTTAAAGGAG-CATTTTGAAT
16091183 TTAAA
1 TTAAA
16091188 ATTTCATAAC
Statistics
Matches: 155, Mismatches: 44, Indels: 7
0.75 0.21 0.03
Matches are distributed among these distances:
39 88 0.57
40 46 0.30
41 20 0.13
42 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (39 bp):
TTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTTGAAT
Found at i:16091031 original size:40 final size:39
Alignment explanation
Indices: 16090920--16091084 Score: 152
Period size: 39 Copynumber: 4.2 Consensus size: 39
16090910 AATTTTGTTA
* * * **
16090920 CCTCTAGTTAGA-AAGCCTTTTAACACTTAAAGTTTGTTG
1 CCTCTAGTTAAAGAAGCATTTTAA-ATTTAAAGTTCATTG
* * * *
16090959 CCTTTGGTTAAAGGAGCATTTTGAATTTAAAGTTCATTG
1 CCTCTAGTTAAAGAAGCATTTTAAATTTAAAGTTCATTG
* * *
16090998 TCTCTAGTCAAAGAAGCATTTTAACATTTAAAGTTTATTG
1 CCTCTAGTTAAAGAAGCATTTTAA-ATTTAAAGTTCATTG
* * * * *
16091038 CCTCTGGTTAAAGGAGCATTTTGAATCTAAAGTTCATTA
1 CCTCTAGTTAAAGAAGCATTTTAAATTTAAAGTTCATTG
16091077 CCTCTAGT
1 CCTCTAGT
16091085 GAGATGAGCT
Statistics
Matches: 99, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
39 58 0.59
40 41 0.41
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (39 bp):
CCTCTAGTTAAAGAAGCATTTTAAATTTAAAGTTCATTG
Found at i:16091039 original size:79 final size:79
Alignment explanation
Indices: 16090917--16091084 Score: 248
Period size: 79 Copynumber: 2.1 Consensus size: 79
16090907 TTAAATTTTG
* * * * *
16090917 TTACCTCTAGTTAGA-AAGCCTTTTAACACTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCATTTT
1 TTACCTCTAGTCAAAGAAGCATTTTAACACTTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTT
*
16090981 GAATTTAAAGTTCA
66 GAATCTAAAGTTCA
** *
16090995 TTGTCTCTAGTCAAAGAAGCATTTTAACATTTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTT
1 TTACCTCTAGTCAAAGAAGCATTTTAACACTTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTT
16091060 GAATCTAAAGTTCA
66 GAATCTAAAGTTCA
16091074 TTACCTCTAGT
1 TTACCTCTAGT
16091085 GAGATGAGCT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 11 0.14
79 67 0.86
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (79 bp):
TTACCTCTAGTCAAAGAAGCATTTTAACACTTAAAGTTTATTGCCTCTGGTTAAAGGAGCATTTT
GAATCTAAAGTTCA
Found at i:16092340 original size:4 final size:5
Alignment explanation
Indices: 16092300--16092358 Score: 57
Period size: 6 Copynumber: 10.8 Consensus size: 5
16092290 TCCTTTTTCT
16092300 TTTTCA TTTTA TTTTCTA TTTTGA TTTTGA TTTTA -TTTA TTTTA TTTTA
1 TTTT-A TTTTA -TTT-TA TTTT-A TTTT-A TTTTA TTTTA TTTTA TTTTA
16092349 TTTTTA TTTT
1 -TTTTA TTTT
16092359 TTACAATAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
4 4 0.08
5 16 0.33
6 26 0.54
7 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:16092348 original size:14 final size:15
Alignment explanation
Indices: 16092323--16092351 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16092313 TTCTATTTTG
16092323 ATTTTGATTTTATTT
1 ATTTTGATTTTATTT
16092338 ATTTT-ATTTTATTT
1 ATTTTGATTTTATTT
16092352 TTATTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
ATTTTGATTTTATTT
Found at i:16092353 original size:20 final size:21
Alignment explanation
Indices: 16092316--16092357 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
16092306 TTTTATTTTC
16092316 TATTTTGATTTTGATTTTATT
1 TATTTTGATTTTGATTTTATT
16092337 TATTTT-ATTTT-ATTTTTATT
1 TATTTTGATTTTGA-TTTTATT
16092357 T
1 T
16092358 TTTACAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 13 0.65
21 6 0.30
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TATTTTGATTTTGATTTTATT
Found at i:16092409 original size:39 final size:37
Alignment explanation
Indices: 16092337--16092410 Score: 87
Period size: 39 Copynumber: 1.9 Consensus size: 37
16092327 TGATTTTATT
* *
16092337 TATTTTATTTTATTTTTATTTTTTACAATAATAATAA
1 TATTTTATTTTATTTTTATTTATTACAAGAATAATAA
*
16092374 TATTATTATTGTTA-TTTTATATTATTACTAGAATAAT
1 TATT-TTATT-TTATTTTTAT-TTATTACAAGAATAAT
16092411 TCTTTTAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 4 0.13
38 11 0.35
39 16 0.52
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (37 bp):
TATTTTATTTTATTTTTATTTATTACAAGAATAATAA
Found at i:16092449 original size:11 final size:12
Alignment explanation
Indices: 16092419--16092455 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
16092409 ATTCTTTTAG
16092419 AAATAAATAA-AA
1 AAATAAA-AATAA
16092431 AAATAAAAATAA
1 AAATAAAAATAA
16092443 AAA-AAAAATAA
1 AAATAAAAATAA
16092454 AA
1 AA
16092456 TATGGACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.50
12 12 0.50
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:16092449 original size:17 final size:18
Alignment explanation
Indices: 16092419--16092455 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
16092409 ATTCTTTTAG
16092419 AAATAAATAAAAAAATAA
1 AAATAAATAAAAAAATAA
16092437 AAATAAA-AAAAAAATAA
1 AAATAAATAAAAAAATAA
16092454 AA
1 AA
16092456 TATGGACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (18 bp):
AAATAAATAAAAAAATAA
Found at i:16096404 original size:13 final size:13
Alignment explanation
Indices: 16096388--16096414 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16096378 AAACAAAAAA
16096388 TTTTTTTTTATCT
1 TTTTTTTTTATCT
16096401 TTTTTTTTTATCT
1 TTTTTTTTTATCT
16096414 T
1 T
16096415 GTATATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTATCT
Found at i:16097975 original size:59 final size:59
Alignment explanation
Indices: 16097901--16098464 Score: 555
Period size: 59 Copynumber: 9.4 Consensus size: 59
16097891 TTGTGCAGGA
*
16097901 AAAATTGATATTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGG
* *
16097960 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TA-TTTTTGAAAACTTTTATTTTCGAA-G
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAA--TTTATTTT-TAAGG
* * * ** *
16098018 AAAATTGATACTTTCAACTTTT-TTCCAAAAA--TATTTTTGGAAACTTTGATTTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATTTATTTTTTGAAAATTT-ATTTTTAAGG
*
16098076 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTT-TTTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA---TTTATTTTTTGAAAATTTATTTTTAAGG
* * * *
16098137 AAAATTGATACTTTCAACTTTT-TTCGAAAATATTT-TTTTTGGAAACTTTGA-TTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTTATTTTTTGAAAATTT-ATTTTTAAGG
* *
16098196 AAAATTGATACTTTCAACTTTTCCTCAAAAATTCCTTTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-T--TTATTTTTTGAAAATTTATTTTTAAGG
*** *
16098258 AAAATTGATACTTTCAACTTTTCCT-AAAAAAAAACCTTTTTTTGAAAATTGATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTA---TTTTTTGAAAATTTATTTTTAAGG
*
16098319 AAAATTGATACTTTCAACTTTTCC-CTAAAAA--TATTTTTTGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATTTATTTTTTGAAAA-TTT-ATTTTTAAGG
* * *** *
16098378 AAAATTAATACTTTCAACTTTTCCTAAAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATTTA---TTTTTTGAAAATTTATTTTTAAGG
*
16098441 AAAATTGATACTTTTAACTTTTCC
1 AAAATTGATACTTTCAACTTTTCC
16098465 CTACAAATAT
Statistics
Matches: 426, Mismatches: 43, Indels: 68
0.79 0.08 0.13
Matches are distributed among these distances:
56 10 0.02
57 17 0.04
58 75 0.18
59 120 0.28
60 11 0.03
61 86 0.20
62 62 0.15
63 31 0.07
64 3 0.01
65 11 0.03
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGG
Found at i:16098315 original size:182 final size:177
Alignment explanation
Indices: 16097899--16098464 Score: 698
Period size: 182 Copynumber: 3.1 Consensus size: 177
16097889 TTTTGTGCAG
* * **
16097899 GAAAAATTGATATTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAAACCT-TTTTTTGAAAATTTATTTTTAAGGAAAA
* *
16097964 TTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTGAAAACTTTTATTTTCGAA-GAAAATTGAT
65 TTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAAACTTTGATTTTC-AAGGAAAATTGAT
* * * * * **
16098027 ACTTTCAACTTTT-TTCCAAAAA--TATTTTTGGAAACTTTGATTTTCGA
129 ACTTTCAACTTTTCCTACAAAAACCTTTTTTTTGAAAATTT-ATTTTTAA
* *
16098074 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTTGAAAATTTATTTTTAAAGAA
1 GAAAAATTGATACTTTCAACTTTTCCT-AAAAAACC--TTTTTTTGAAAATTTATTTTTAAGGAA
** * *
16098139 AATTGATACTTTCAACTTTTTTCGAAAATATTTTTTTTGGAAACTTTGA-TTTCAAGGAAAATTG
63 AATTGATACTTTCAACTTTTCCCCAAAA-ATTTTTTTTGAAAACTTTGATTTTCAAGGAAAATTG
16098203 ATACTTTCAACTTTTCCT-CAAAAATTCCTTTTTTTTTGAAAATTTATTTTTAA
127 ATACTTTCAACTTTTCCTACAAAAA--CC-TTTTTTTTGAAAATTTATTTTTAA
*
16098256 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTGAAAATTGATTTTTAAGGAA
1 GAAAAATTGATACTTTCAACTTTTCCT---AAAAAACCTTTTTTTGAAAATTTATTTTTAAGGAA
* * *
16098321 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAACTTTGATTTTCAAGGAAAATTAA
63 AATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAAACTTTGATTTTCAAGGAAAATTGA
*
16098386 TACTTTCAACTTTTCCTAAAAAAAAAAACC-TTTTTTTGAAAATTTATTTTTAA
128 TACTTTCAACTTTTCCT----ACAAAAACCTTTTTTTTGAAAATTTATTTTTAA
*
16098439 GAAAAATTGATACTTTTAACTTTTCC
1 GAAAAATTGATACTTTCAACTTTTCC
16098465 CTACAAATAT
Statistics
Matches: 341, Mismatches: 30, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
175 26 0.08
176 4 0.01
177 52 0.15
178 35 0.10
179 16 0.05
181 18 0.05
182 115 0.34
183 61 0.18
184 7 0.02
185 2 0.01
187 5 0.01
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (177 bp):
GAAAAATTGATACTTTCAACTTTTCCTAAAAAACCTTTTTTTGAAAATTTATTTTTAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAAACTTTGATTTTCAAGGAAAATTGATAC
TTTCAACTTTTCCTACAAAAACCTTTTTTTTGAAAATTTATTTTTAA
Found at i:16098542 original size:19 final size:19
Alignment explanation
Indices: 16098494--16098546 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
16098484 TTTATTTAAA
*
16098494 GAAAATAACAAAATAAAAGT
1 GAAAATAA-AAAATAAAAAT
*
16098514 GAAAAAAAAAAATAAAAAT
1 GAAAATAAAAAATAAAAAT
16098533 -AAAGATAAAAAATA
1 GAAA-ATAAAAAATA
16098547 TTAAATAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (19 bp):
GAAAATAAAAAATAAAAAT
Found at i:16099634 original size:9 final size:8
Alignment explanation
Indices: 16099596--16099710 Score: 62
Period size: 8 Copynumber: 13.8 Consensus size: 8
16099586 AATACCTAAG
16099596 ATAAAAAA
1 ATAAAAAA
16099604 ATAAAAGAA
1 ATAAAA-AA
16099613 A-AAAAATA
1 ATAAAAA-A
16099621 TATAAAAACA
1 -ATAAAAA-A
16099631 ATAATAAAA
1 ATAA-AAAA
16099640 ATAAAAATA
1 ATAAAAA-A
16099649 A-AATAAAA
1 ATAA-AAAA
*
16099657 ATGTAAAATAC
1 A--TAAAA-AA
16099668 A-AAAAAA
1 ATAAAAAA
16099675 AT-AAAAA
1 ATAAAAAA
16099682 AT-AAAAA
1 ATAAAAAA
*
16099689 TTAAATAAA
1 ATAAA-AAA
*
16099698 A-ATAAAA
1 ATAAAAAA
16099705 ATAAAA
1 ATAAAA
16099711 TGAAGAAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 30
0.70 0.06 0.25
Matches are distributed among these distances:
7 20 0.24
8 29 0.34
9 21 0.25
10 11 0.13
11 4 0.05
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (8 bp):
ATAAAAAA
Found at i:16099644 original size:6 final size:6
Alignment explanation
Indices: 16099600--16099710 Score: 97
Period size: 6 Copynumber: 18.7 Consensus size: 6
16099590 CCTAAGATAA
* * *
16099600 AAAAAT AAAAGA- AAAAA- AATATAT AAAAAC AATAAT AAAAAT AAAAAT
1 AAAAAT AAAA-AT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * *
16099648 -AAAAT AAAAAT GTAAAAT ACAAA- AAAAAT AAAAAAT AAAAAT -TAAAT
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT
16099695 AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAA
16099711 TGAAGAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
5 16 0.19
6 55 0.65
7 14 0.16
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:16099648 original size:42 final size:40
Alignment explanation
Indices: 16099600--16099704 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 40
16099590 CCTAAGATAA
* * *
16099600 AAAAATAAAAGAAAAA-AAATATATAAAAACAATAATAAAAAT
1 AAAAATAAAATAAAAATAAA-ATACAAAAAAAAT-A-AAAAAT
16099642 AAAAATAAAATAAAAATGTAAAATACAAAAAAAATAAAAAAT
1 AAAAATAAAATAAAAA--TAAAATACAAAAAAAATAAAAAAT
*
16099684 AAAAATTAAATAAAAATAAAA
1 AAAAATAAAATAAAAATAAAA
16099705 ATAAAATGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
40 5 0.09
42 36 0.64
43 1 0.02
44 11 0.20
45 3 0.05
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (40 bp):
AAAAATAAAATAAAAATAAAATACAAAAAAAATAAAAAAT
Found at i:16099723 original size:24 final size:21
Alignment explanation
Indices: 16099611--16099710 Score: 59
Period size: 21 Copynumber: 4.7 Consensus size: 21
16099601 AAAATAAAAG
*
16099611 AAAAAAAATATATAAAA-ACAAT
1 AAAAAAAA-ATA-AAAATAAAAT
*
16099633 -AATAAAAATAAAAATAAAAT
1 AAAAAAAAATAAAAATAAAAT
16099653 AAAAATGTAAAATACAAAA-AAAAT
1 AAAAA---AAAATA-AAAATAAAAT
*
16099677 ---AAAAAATAAAAATTAAAT
1 AAAAAAAAATAAAAATAAAAT
16099695 AAAAATAAAAATAAAA
1 -AAAA-AAAAATAAAA
16099711 TGAAGAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 23
0.70 0.04 0.26
Matches are distributed among these distances:
17 4 0.06
18 10 0.16
19 4 0.06
20 7 0.11
21 11 0.18
22 1 0.02
23 10 0.16
24 11 0.18
25 4 0.06
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.18
Consensus pattern (21 bp):
AAAAAAAAATAAAAATAAAAT
Found at i:16099966 original size:42 final size:42
Alignment explanation
Indices: 16099907--16100162 Score: 336
Period size: 42 Copynumber: 6.1 Consensus size: 42
16099897 TTTTATCAAA
** * * *
16099907 GCTCCTCTAGGCAGAGGCTCAACAACTTTAGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTAGAAAAGTAAATT
* *
16099949 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTAGAAAAGTAAATT
* * *
16099991 GCTCCTCTAAACAGAGGCACCACGATTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTAGAAAAGTAAATT
* * * *
16100033 ACTCCTCTAAACAAAGGCACCACGACTTT-GGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTAGAAAAGTAAATT
16100074 GCTCCTCTAAACAGAGGCACCACAACTTTA-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTAGAAAAGTAAATT
* * * *
16100115 GTTCCTCTAAAAAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTAGAAAAGTAAATT
16100157 GCTCCT
1 GCTCCT
16100163 TGACAATCAT
Statistics
Matches: 191, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 73 0.38
42 118 0.62
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTAGAAAAGTAAATT
Found at i:16101194 original size:25 final size:23
Alignment explanation
Indices: 16101163--16101231 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 23
16101153 TGAGTCTTCC
16101163 TTTTTCATTCACTTT-TTTTTTCATT
1 TTTTTCATT--CTTTATTTTTTCA-T
*
16101188 TTTTTCATTTTTTCATTTTTTCAT
1 TTTTTCATTCTTT-ATTTTTTCAT
*
16101212 TTTTTCATTTTTTATTTTTT
1 TTTTTCATTCTTTATTTTTT
16101232 TTCAAGCATA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
23 10 0.24
24 14 0.34
25 17 0.41
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTCATTCTTTATTTTTTCAT
Found at i:16101231 original size:17 final size:17
Alignment explanation
Indices: 16101176--16101235 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
16101166 TTCATTCACT
16101176 TTTTTTTTCATTTTTT-
1 TTTTTTTTCATTTTTTA
*
16101192 TCATTTTTTCATTTTTTCA
1 T-TTTTTTTCATTTTTT-A
16101211 --TTTTTTCATTTTTTA
1 TTTTTTTTCATTTTTTA
16101226 TTTTTTTTCA
1 TTTTTTTTCA
16101236 AGCATAGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 1 0.03
16 15 0.39
17 22 0.58
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTTTCATTTTTTA
Found at i:16101233 original size:9 final size:8
Alignment explanation
Indices: 16101178--16101231 Score: 92
Period size: 8 Copynumber: 6.8 Consensus size: 8
16101168 CATTCACTTT
16101178 TTTTTTCA
1 TTTTTTCA
16101186 TTTTTTTCA
1 -TTTTTTCA
16101195 TTTTTTCA
1 TTTTTTCA
16101203 TTTTTTCA
1 TTTTTTCA
16101211 TTTTTTCA
1 TTTTTTCA
16101219 TTTTTT-A
1 TTTTTTCA
16101226 TTTTTT
1 TTTTTT
16101232 TTCAAGCATA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.16
8 30 0.67
9 8 0.18
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCA
Found at i:16104806 original size:21 final size:21
Alignment explanation
Indices: 16104782--16104832 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
16104772 CCCAAAATTA
16104782 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
*
16104803 ATAAAAGATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
16104824 AT-AAATATT
1 ATAAAATATT
16104833 TAAAATATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:16108554 original size:27 final size:27
Alignment explanation
Indices: 16108524--16108615 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 27
16108514 TTTGTGCGAG
16108524 AAAAATTGATACTTTCAACTTTTTCTC
1 AAAAATTGATACTTTCAACTTTTTCTC
* *
16108551 AAAAA-T-ATTCTTTTGAAACTTTAATT-TC
1 AAAAATTGATAC-TTT-CAACTTT--TTCTC
*
16108579 GAGGAAAATTGATACTTTCAACTTTTCCTC
1 -A--AAAATTGATACTTTCAACTTTTTCTC
16108609 AAAAATT
1 AAAAATT
16108616 TATTTTTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 20
0.67 0.07 0.27
Matches are distributed among these distances:
25 3 0.06
26 4 0.08
27 17 0.34
28 2 0.04
29 5 0.10
30 2 0.04
31 10 0.20
32 4 0.08
33 3 0.06
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTC
Found at i:16108589 original size:58 final size:58
Alignment explanation
Indices: 16108525--16108979 Score: 553
Period size: 59 Copynumber: 7.7 Consensus size: 58
16108515 TTGTGCGAGA
* * * *
16108525 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAAGG
* * *
16108583 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTGAAACTTTATTTTCAAGG
* *
16108642 AAAATTGATACTTTCAACTTTTCC-CGAAAAATA-TTTTTGGAAACTTTTATTTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAC-TTTATTTTCAAGG
*
16108700 AAAATTGATACTTTCAACTTTTCC-CGAAAATATTTTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTT-GAAACTTT-ATTTTCAAGG
* * * *
16108760 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTGAAATTTTTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAACTTTATTTTCAAGG
* * * * *
16108819 AAAATTGATGCTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATA--TTTTTTTGAAACTTTATTTTCAAGG
* *
16108880 AAAATTGATACTTTTAACCTTTTCCT-AAAAATA-TTTTTTGAAAACTTTGATTTTCGAGG
1 AAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTTG-AAACTTT-ATTTTCAAGG
*
16108939 AAAATTGATAC-TTCAACTTTTCCCCAAAAATATTTTTTTGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGA
16108980 TTTTATTTAA
Statistics
Matches: 346, Mismatches: 34, Indels: 34
0.84 0.08 0.08
Matches are distributed among these distances:
57 29 0.08
58 87 0.25
59 115 0.33
60 56 0.16
61 50 0.14
62 9 0.03
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAAGG
Found at i:16109016 original size:20 final size:21
Alignment explanation
Indices: 16108991--16109029 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16108981 TTTATTTAAA
*
16108991 GAAAATAACAAAA-TAAAAGT
1 GAAAATAAAAAAATTAAAAGT
16109011 GAAAATAAAAAAATTAAAA
1 GAAAATAAAAAAATTAAAA
16109030 AAAGAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (21 bp):
GAAAATAAAAAAATTAAAAGT
Found at i:16109020 original size:17 final size:16
Alignment explanation
Indices: 16109000--16109085 Score: 56
Period size: 17 Copynumber: 5.5 Consensus size: 16
16108990 AGAAAATAAC
16109000 AAAATAAAAGTGAAAAT
1 AAAATAAAAGT-AAAAT
*
16109017 -AAA-AAAA-TTAAA-
1 AAAATAAAAGTAAAAT
* *
16109029 AAAAGAAAAGTAAAACA
1 AAAATAAAAGTAAAA-T
*
16109046 AAAATAAAAATAAAAT
1 AAAATAAAAGTAAAAT
*
16109062 AAAGATAAAAG-AATAT
1 AAA-ATAAAAGTAAAAT
*
16109078 TAAATAAA
1 AAAATAAA
16109086 CATAATCTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
13 6 0.11
14 5 0.09
15 13 0.24
16 12 0.22
17 19 0.35
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (16 bp):
AAAATAAAAGTAAAAT
Found at i:16109069 original size:11 final size:11
Alignment explanation
Indices: 16109000--16109071 Score: 51
Period size: 11 Copynumber: 6.4 Consensus size: 11
16108990 AGAAAATAAC
*
16109000 AAAATAAAAGT
1 AAAATAAAAAT
16109011 GAAAATAAAAA-
1 -AAAATAAAAAT
*
16109022 AATTAA-AAAAAG
1 AA--AATAAAAAT
16109034 AAAAGTAAAACA-
1 AAAA-TAAAA-AT
16109046 AAAATAAAAAT
1 AAAATAAAAAT
*
16109057 AAAATAAAGAT
1 AAAATAAAAAT
16109068 AAAA
1 AAAA
16109072 GAATATTAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
10 5 0.10
11 24 0.47
12 21 0.41
13 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:16109081 original size:28 final size:26
Alignment explanation
Indices: 16109000--16109081 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 26
16108990 AGAAAATAAC
16109000 AAAATAAAAGTGAAA-ATAAAAAAATTA
1 AAAATAAAA-T-AAAGATAAAAAAATTA
* *
16109027 AAAA-AAGA-AAAG-TAAAACAAAAATA
1 AAAATAAAATAAAGAT-AAA-AAAATTA
16109052 AAAATAAAATAAAGATAAAAGAATATTA
1 AAAATAAAATAAAGATAAAA-AA-ATTA
16109080 AA
1 AA
16109082 TAAACATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 15
0.69 0.06 0.24
Matches are distributed among these distances:
23 4 0.09
24 3 0.07
25 10 0.23
26 7 0.16
27 13 0.30
28 6 0.14
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (26 bp):
AAAATAAAATAAAGATAAAAAAATTA
Found at i:16110135 original size:6 final size:6
Alignment explanation
Indices: 16110124--16110207 Score: 55
Period size: 6 Copynumber: 13.5 Consensus size: 6
16110114 CTAAGATAAT
* * * * *
16110124 AAAATA AAAATA TATATATA TAAA-A ATAATA ATAATA GAAAT- AAAATA
1 AAAATA AAAATA -A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
16110172 AAAATGTA AAATAAA AAAATA AAAATA AAAATA AAA
1 AAAA--TA AAA-ATA AAAATA AAAATA AAAATA AAA
16110208 TGAAGAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
5 7 0.11
6 39 0.64
7 5 0.08
8 9 0.15
9 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:16110146 original size:21 final size:21
Alignment explanation
Indices: 16110122--16110198 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
16110112 ACCTAAGATA
*
16110122 ATAAAATAAAAATATATATAT
1 ATAAAATAAAAATATATAAAT
*
16110143 ATAAAAATAATAATA-ATAGAA-
1 AT-AAAATAAAAATATATA-AAT
*
16110164 ATAAAATAAAAATGTA-AAAT
1 ATAAAATAAAAATATATAAAT
*
16110184 AAAAAAATAAAAATA
1 -ATAAAATAAAAATA
16110199 AAAATAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 2 0.04
20 11 0.24
21 20 0.44
22 12 0.27
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
ATAAAATAAAAATATATAAAT
Found at i:16110183 original size:13 final size:13
Alignment explanation
Indices: 16110122--16110204 Score: 71
Period size: 13 Copynumber: 6.1 Consensus size: 13
16110112 ACCTAAGATA
16110122 ATAAAATAAAAAT
1 ATAAAATAAAAAT
16110135 ATATATATATAAAAAT
1 ATA-A-A-ATAAAAAT
*
16110151 AATAATAAT-AGAA-
1 -ATAA-AATAAAAAT
16110164 ATAAAATAAAAAT
1 ATAAAATAAAAAT
* *
16110177 GTAAAATAAAAAA
1 ATAAAATAAAAAT
16110190 ATAAAAATAAAAAT
1 AT-AAAATAAAAAT
16110204 A
1 A
16110205 AAATGAAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
11 3 0.05
12 7 0.12
13 15 0.26
14 15 0.26
15 3 0.05
16 11 0.19
17 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
ATAAAATAAAAAT
Found at i:16110204 original size:38 final size:42
Alignment explanation
Indices: 16110121--16110208 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 42
16110111 TACCTAAGAT
* *
16110121 AATAAAATAAAAATATATATATATAAAAATAATAATAATAGA
1 AATAAAATAAAAATATATATATATAAAAATAATAAAAATAAA
*
16110163 AATAAAATAAAAATGTA-A-A-ATAAAAA-AATAAAAATAAA
1 AATAAAATAAAAATATATATATATAAAAATAATAAAAATAAA
16110201 AATAAAAT
1 AATAAAAT
16110209 GAAGAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 18 0.42
39 7 0.16
40 1 0.02
41 1 0.02
42 16 0.37
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (42 bp):
AATAAAATAAAAATATATATATATAAAAATAATAAAAATAAA
Found at i:16110220 original size:32 final size:32
Alignment explanation
Indices: 16110157--16110220 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
16110147 AAATAATAAT
* *
16110157 AATAGAAATAAAATAAAAATGTAAAATAAAAA
1 AATAAAAATAAAATAAAAATGTAAAAAAAAAA
*
16110189 AATAAAAATAAAA-ATAAAATG-AAGAAAAAAA
1 AATAAAAATAAAATA-AAAATGTAAAAAAAAAA
16110220 A
1 A
16110221 GAACATAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (32 bp):
AATAAAAATAAAATAAAAATGTAAAAAAAAAA
Found at i:16115063 original size:18 final size:18
Alignment explanation
Indices: 16115037--16115159 Score: 76
Period size: 18 Copynumber: 6.8 Consensus size: 18
16115027 CTTTGTTCTT
16115037 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
16115055 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
*
16115070 GATACATTT-ATGATGGAG
1 GATACATTTGA-GGTGGAG
* * * * *
16115088 GGTATATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
16115106 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
*
16115124 GATATATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAG
*
16115145 GATACATTTAAGGTG
1 GATACATTTGAGGTG
16115160 AATAATAACC
Statistics
Matches: 77, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
14 1 0.01
15 11 0.14
17 1 0.01
18 46 0.60
19 1 0.01
21 17 0.22
ACGTcount: A:0.29, C:0.04, G:0.33, T:0.33
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:16115524 original size:12 final size:12
Alignment explanation
Indices: 16115506--16115548 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
16115496 CCAAAATTCG
16115506 CACCATCGCCAT
1 CACCATCGCCAT
* *
16115518 CATCATCTCCAT
1 CACCATCGCCAT
**
16115530 CACCATCTTCAT
1 CACCATCGCCAT
16115542 CACCATC
1 CACCATC
16115549 ATCATCTGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.26, C:0.47, G:0.02, T:0.26
Consensus pattern (12 bp):
CACCATCGCCAT
Found at i:16115555 original size:18 final size:18
Alignment explanation
Indices: 16115506--16115555 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
16115496 CCAAAATTCG
* *
16115506 CACCATCGCCATCATCAT
1 CACCATCACCATCTTCAT
*
16115524 CTCCATCACCATCTTCAT
1 CACCATCACCATCTTCAT
*
16115542 CACCATCATCATCT
1 CACCATCACCATCT
16115556 GGACTTAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.28
Consensus pattern (18 bp):
CACCATCACCATCTTCAT
Found at i:16119014 original size:26 final size:26
Alignment explanation
Indices: 16118965--16119013 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
16118955 TTTCATAAAT
*
16118965 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
16118991 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
16119014 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:16119261 original size:19 final size:20
Alignment explanation
Indices: 16119239--16119276 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16119229 AAACAACAAA
*
16119239 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
16119258 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
16119277 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:16119602 original size:38 final size:39
Alignment explanation
Indices: 16119531--16119622 Score: 143
Period size: 38 Copynumber: 2.4 Consensus size: 39
16119521 CCACCCCCAT
* *
16119531 CAATCCCTCTCCACCTTCCCCCCCAACATCCCACCACACC
1 CAATCCCTCCCCACCTT-CCCCCCAACACCCCACCACACC
16119571 CAATCCCTCCCCACCTT-CCCCCAACACCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCAACACCCCACCACACC
16119609 CAAT-CCTCCCCACC
1 CAATCCCTCCCCACC
16119623 CCATCCAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
37 10 0.20
38 24 0.48
40 16 0.32
ACGTcount: A:0.23, C:0.64, G:0.00, T:0.13
Consensus pattern (39 bp):
CAATCCCTCCCCACCTTCCCCCCAACACCCCACCACACC
Found at i:16119621 original size:19 final size:19
Alignment explanation
Indices: 16119560--16119641 Score: 78
Period size: 19 Copynumber: 4.3 Consensus size: 19
16119550 CCCCCAACAT
16119560 CCCACCACACCCAATCCCTC
1 CCCACCACACCCAAT-CCTC
* * *
16119580 CCCACCTTCCCCCAA--CAC
1 CCCACC-ACACCCAATCCTC
16119598 CCCACCACACCCAATCCTC
1 CCCACCACACCCAATCCTC
* *
16119617 CCCACCCCATCCAATCTCTC
1 CCCACCACACCCAATC-CTC
16119637 CCCAC
1 CCCAC
16119642 GTGCCTAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.12
18 8 0.16
19 16 0.32
20 14 0.28
21 6 0.12
ACGTcount: A:0.23, C:0.65, G:0.00, T:0.12
Consensus pattern (19 bp):
CCCACCACACCCAATCCTC
Found at i:16120246 original size:46 final size:46
Alignment explanation
Indices: 16120179--16120270 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
16120169 TTTTTTTGTT
*
16120179 AGAACTATTAAATCCGTGAGTAGAAAAACGGAATAGCGGCAATAAC
1 AGAACTATTAAATCCGTGAGTAGAAAAACGGAATAGCGACAATAAC
16120225 AGAACTATTAAATCCGTGAGTAGAAAAACGGAATAGCGACAATAAC
1 AGAACTATTAAATCCGTGAGTAGAAAAACGGAATAGCGACAATAAC
16120271 GGTCCGTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (46 bp):
AGAACTATTAAATCCGTGAGTAGAAAAACGGAATAGCGACAATAAC
Found at i:16123869 original size:62 final size:63
Alignment explanation
Indices: 16123761--16123884 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 63
16123751 TTTTTTTGGA
* * * * *
16123761 TTATTCAAGGCGTTTTTGGCCAAAAAATGCATTGAATAATCCCTTACAGAAAATTGAATGGGG
1 TTATTCAAGGCATTTCTGGCCAAAAAATACATTGAATAATCACTTACAAAAAATTGAATGGGG
* *
16123824 TTATTCAATGCATTTCTGGCC-AAAAATACCTTGAATAATCACTTACAAAAAATTGAATGGG
1 TTATTCAAGGCATTTCTGGCCAAAAAATACATTGAATAATCACTTACAAAAAATTGAATGGG
16123885 ATTTTTTCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
62 36 0.67
63 18 0.33
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (63 bp):
TTATTCAAGGCATTTCTGGCCAAAAAATACATTGAATAATCACTTACAAAAAATTGAATGGGG
Found at i:16124383 original size:161 final size:161
Alignment explanation
Indices: 16123884--16124912 Score: 1037
Period size: 161 Copynumber: 6.4 Consensus size: 161
16123874 AATTGAATGG
* * * *
16123884 GATTTTTTCATGTCGTTAAAAGGCAAAAATA-CAAATTTACTATTATTGTTG-TATTTTAATAGT
1 GATTTTTT-ATGCCATTAAAAGGCAAAAA-AGCAAAATTGCTATTATTG-TGCTATTTTAATAGT
* * * * * *
16123947 TTAGATGGCTTTAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCACAATTGAT
63 TTGGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAGTTGAT
* * * * *
16124012 ATGTATGAAAAA-CTACCATTTACGTTTGTTTAA
128 ATGTGTGAAAAAGTTATCGTTTACGTCTGTTTAA
* * *
16124045 GA-TTTTTGTGCCATTAAAAGGTAAAAATGCAAAATTGCTATTATTGTGCTATTTTAA-AGTTTG
1 GATTTTTTATGCCATTAAAAGGCAAAAAAGCAAAATTGCTATTATTGTGCTATTTTAATAGTTTG
* * * *
16124108 GATAGATTCAATACATGATATT-AACTTGTCCGAATGATTAAACTTGGTTTCTA-TGATTGATAT
66 GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAG-TTGATAT
* **
16124171 GTGTGAAAAAGTTGGT-GTTTATATCTGTTTAA
130 GTGTGAAAAAGTT-ATCGTTTACGTCTGTTTAA
* * * *
16124203 GACTTTTTT-TACCATTAAAAGGCAAAAAAGCAAAATTGCTA-TAGTTGTTCTATTTTAACAATT
1 GA-TTTTTTATGCCATTAAAAGGCAAAAAAGCAAAATTGCTATTA-TTGTGCTATTTTAATAGTT
* * * * * ** *
16124266 TTGATAGTTTCAATATAAGATATTAAACTTGTTCGAATGATTGAACTTGACTTCCACAGTTGAAA
64 TGGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAGTTGATA
* *
16124331 TATGTGAAAAAGTTATCGTTTACGTCTATTTAA
129 TGTGTGAAAAAGTTATCGTTTACGTCTGTTTAA
* *
16124364 GATTTTTTATGCCATTAAAAGGCAAACATA-CAAAATTGCTATCATTGTGCTATTTTAATAGTTT
1 GATTTTTTATGCCATTAAAAGGCAAA-AAAGCAAAATTGCTATTATTGTGCTATTTTAATAGTTT
* * * *
16124428 GGATAGCTTCAATGCAGGATATTAAACTTGTTCGAATGATTGAACTTGATTT-CACAGTTGATAT
65 GGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAGTTGATAT
*
16124492 GTGTGAAAAAGTTA-CTGTTTATC-TTTGTTTAA
130 GTGTGAAAAAGTTATC-GTTTA-CGTCTGTTTAA
* * * * * * * * *
16124524 GATTTTTTTTTATGTCATTAAAAGGTAAAAATGTAAATTTACTATTATTGTTCTATTTTAACAAT
1 GA---TTTTTTATGCCATTAAAAGGCAAAAAAGCAAAATTGCTATTATTGTGCTATTTTAATAGT
* * *
16124589 TTGGATGGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAGTTGAA
63 TTGGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAGTTGAT
* * * *
16124654 ATATATGAAAAAGTTATCGTTTATGTCTATTTAA
128 ATGTGTGAAAAAGTTATCGTTTACGTCTGTTTAA
* ** ** * * *
16124688 GACTTTTTATGCTGTTAAAAGTTAAAAAAGCAAAATTGCTATTATTGTGCTATTGTAATTGTTTA
1 GATTTTTTATGCCATTAAAAGGCAAAAAAGCAAAATTGCTATTATTGTGCTATTTTAATAGTTTG
* ** * * *
16124753 AATAGCTTCAATACACAATATTAAACTTGTCCGAATGATTAAACTTGGTTTTCACAATTGATATG
66 GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAGTTGATATG
* *
16124818 TGTG-AAAAGTT-TCTATTTACCTCTGTTTAA
131 TGTGAAAAAGTTATC-GTTTACGTCTGTTTAA
* * * * * * * * *
16124848 GATTTTTTGTGTCATTAAAAGGCAAAAATGTAAATTTACTATTATTATTCTGTTTTAATAGTTTG
1 GATTTTTTATGCCATTAAAAGGCAAAAAAGCAAAATTGCTATTATTGTGCTATTTTAATAGTTTG
16124913 AATGATATTA
Statistics
Matches: 711, Mismatches: 132, Indels: 51
0.80 0.15 0.06
Matches are distributed among these distances:
157 43 0.06
158 43 0.06
159 84 0.12
160 145 0.20
161 258 0.36
162 5 0.01
163 95 0.13
164 37 0.05
165 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (161 bp):
GATTTTTTATGCCATTAAAAGGCAAAAAAGCAAAATTGCTATTATTGTGCTATTTTAATAGTTTG
GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCCACAGTTGATATG
TGTGAAAAAGTTATCGTTTACGTCTGTTTAA
Found at i:16124638 original size:324 final size:320
Alignment explanation
Indices: 16123884--16124905 Score: 1270
Period size: 324 Copynumber: 3.2 Consensus size: 320
16123874 AATTGAATGG
* * * * * *
16123884 GATTTTTTCATGTCGTTAAAAGGCAAAAATACAAATTTACTATTATTGTTGTATTTTAATAGTTT
1 GATTTTTTTATGTCATTAAAAGGCAAAAATGCAAATTTACTATTATTGTTCTATTTTAACAATTT
* * *
16123949 AGATGGCTTTAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCACAATTGATAT
66 AGATGGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCACAGTTGAAAT
* * * * * * * *
16124014 GTATGAAAAA-CTACCATTTACGTTTGTTTAAGATTTTTGTGCCATTAAAAGGTAAAAATGCAAA
131 ATATGAAAAAGTTATCGTTTACGTCTATTTAAGATTTTTATGCCATTAAAAGGT-AAAATACAAA
* *
16124078 ATTGCTATTATTGTGCTATTTTAA-AGTTTGGATAGATTCAATACATGATATT-AACTTGTCCGA
195 ATTGCTATTATTGTGCTATTTTAATAGTTTGGATAGCTTCAATACACGATATTAAACTTGTCCGA
* * ** *
16124141 ATGATTAAACTTGGTTTCTA-TGATTGATATGTGTGAAAAAGTTGGTGTTTATATCTGTTTAA
260 ATGATTAAACTTGATTTC-ACAG-TTGATATGTGTGAAAAAGTTACTGTTTATCTCTGTTTAA
* * * *
16124203 GACTTTTTTTA--CCATTAAAAGGCAAAAAAGCAAAATTGCTA-TAGTTGTTCTATTTTAACAAT
1 GA-TTTTTTTATGTCATTAAAAGGCAAAAATGCAAATTTACTATTA-TTGTTCTATTTTAACAAT
* * * * * * **
16124265 TTTGATAGTTTCAATATAAGATATTAAACTTGTTCGAATGATTGAACTTGACTTCCACAGTTGAA
64 TTAGATGGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCACAGTTGAA
* *
16124330 ATATGTGAAAAAGTTATCGTTTACGTCTATTTAAGATTTTTTATGCCATTAAAAGGCAAACATAC
129 ATATATGAAAAAGTTATCGTTTACGTCTATTTAAGA-TTTTTATGCCATTAAAAGGTAAA-ATAC
* * * *
16124395 AAAATTGCTATCATTGTGCTATTTTAATAGTTTGGATAGCTTCAATGCAGGATATTAAACTTGTT
192 AAAATTGCTATTATTGTGCTATTTTAATAGTTTGGATAGCTTCAATACACGATATTAAACTTGTC
* *
16124460 CGAATGATTGAACTTGATTTCACAGTTGATATGTGTGAAAAAGTTACTGTTTATCTTTGTTTAA
257 CGAATGATTAAACTTGATTTCACAGTTGATATGTGTGAAAAAGTTACTGTTTATCTCTGTTTAA
* *
16124524 GATTTTTTTTTATGTCATTAAAAGGTAAAAATGTAAATTTACTATTATTGTTCTATTTTAACAAT
1 GA--TTTTTTTATGTCATTAAAAGGCAAAAATGCAAATTTACTATTATTGTTCTATTTTAACAAT
* *
16124589 TTGGATGGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCACAGTTGAA
64 TTAGATGGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCACAGTTGAA
* ** * *
16124654 ATATATGAAAAAGTTATCGTTTATGTCTATTTAAGACTTTTTATGCTGTTAAAAGTTAAAAAAGC
129 ATATATGAAAAAGTTATCGTTTACGTCTATTTAAGA-TTTTTATGCCATTAAAAGGTAAAATA-C
* * ** *
16124719 AAAATTGCTATTATTGTGCTATTGTAATTGTTTAAATAGCTTCAATACACAATATTAAACTTGTC
192 AAAATTGCTATTATTGTGCTATTTTAATAGTTTGGATAGCTTCAATACACGATATTAAACTTGTC
* * * * *
16124784 CGAATGATTAAACTTGGTTTTCACAATTGATATGTGTG-AAAAGTTTCTATTTACCTCTGTTTAA
257 CGAATGATTAAACTT-GATTTCACAGTTGATATGTGTGAAAAAGTTACTGTTTATCTCTGTTTAA
* * * *
16124848 GA-TTTTTTGTGTCATTAAAAGGCAAAAATGTAAATTTACTATTATTATTCTGTTTTAA
1 GATTTTTTTATGTCATTAAAAGGCAAAAATGCAAATTTACTATTATTGTTCTATTTTAA
16124906 TAGTTTGAAT
Statistics
Matches: 602, Mismatches: 87, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
317 2 0.00
318 103 0.17
319 23 0.04
320 54 0.09
321 115 0.19
322 35 0.06
323 2 0.00
324 246 0.41
325 22 0.04
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (320 bp):
GATTTTTTTATGTCATTAAAAGGCAAAAATGCAAATTTACTATTATTGTTCTATTTTAACAATTT
AGATGGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCACAGTTGAAAT
ATATGAAAAAGTTATCGTTTACGTCTATTTAAGATTTTTATGCCATTAAAAGGTAAAATACAAAA
TTGCTATTATTGTGCTATTTTAATAGTTTGGATAGCTTCAATACACGATATTAAACTTGTCCGAA
TGATTAAACTTGATTTCACAGTTGATATGTGTGAAAAAGTTACTGTTTATCTCTGTTTAA
Found at i:16124824 original size:485 final size:478
Alignment explanation
Indices: 16123884--16124911 Score: 1217
Period size: 485 Copynumber: 2.1 Consensus size: 478
16123874 AATTGAATGG
* * *
16123884 GATTTTTTCATGTCGTTAAAAGGCAAAAATACAAATTTACTATTATTGTTGTATTTTAATAGTTT
1 GATTTTTT-ATGTCATTAAAAGGCAAAAATACAAAATTACTATCATTGTTGTATTTTAATAGTTT
* * * *
16123949 AGATGGCTTTAATACATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTCCACAATTGATAT
65 AGATAGCTTCAATACAGGATATTAAACTTGTTCAAATGATTGAACTTGATTTCCACAATTGATAT
*
16124014 GTATGAAAAACTACCATTTACGTTTGTTTAAGATTTTTGTGCCATTAAAAGGTAAAAATGCAAAA
130 GTATGAAAAACTACCATTTACGTTTGTTTAAGATTTTTATGCCATTAAAAGGTAAAAATGCAAAA
* * *
16124079 TTGCTATTATTGTGCTATTTTAAAGTTTGGATAGATTCAATACATGATATTAACTTGTCCGAATG
195 TTACTATTATTGTGCTATTTTAAAATTTGGATAGATTCAATACATGATATTAACTTGTCCAAATG
* * * * * * *
16124144 ATTAAACTTGGTTTCTATGATTGATATGTGTGAAAAAGTTGGTGTTTATATCTGTTTAAGACTTT
260 ATTAAACTTGGTTTCCAAGATTGAAATATATGAAAAAGTTGATGTTTATATCTATTTAAGACTTT
* * * ** *
16124209 TTTTACCATTAAAAGGCAAAAAAGCAAAATTGCTATAGTTGTTCTATTTTAACAATTTTGATAGT
325 TTATACCATTAAAAGGCAAAAAAGCAAAATTGCTATAGTTGTGCTATTGTAACAATTTAAATAGC
* * * *
16124274 TTCAATATAAGATATTAAACTTGTTCGAATGATTGAACTTGACTTCCACAGTTGAAATATGTGAA
390 TTCAATACAAGATATTAAACTTGTCCGAATGATTAAACTTGACTTCCACAATTGAAATATGTG-A
* *
16124339 AAAGTTATC-GTTTACGTCTATTTAA
454 AAAGTT-TCTATTTACCTCTATTTAA
* * *
16124364 GATTTTTTATGCCATTAAAAGGCAAACATACAAAATTGCTATCATTG-TGCTATTTTAATAGTTT
1 GATTTTTTATGTCATTAAAAGGCAAAAATACAAAATTACTATCATTGTTG-TATTTTAATAGTTT
* * * *
16124428 GGATAGCTTCAATGCAGGATATTAAACTTGTTCGAATGATTGAACTTGATTT-CACAGTTGATAT
65 AGATAGCTTCAATACAGGATATTAAACTTGTTCAAATGATTGAACTTGATTTCCACAATTGATAT
* * ** *
16124492 GTGTGAAAAAGTTACTGTTTATC-TTTGTTTAAGATTTTTTTTTATGTCATTAAAAGGTAAAAAT
130 GTATGAAAAA-CTACCATTTA-CGTTTGTTTAAGA----TTTTTATGCCATTAAAAGGTAAAAAT
* * * * *
16124556 GTAAATTTACTATTATTGTTCTATTTTAACAATTTGGATGGCTTCAATACATGATATTAAACTTG
189 GCAAAATTACTATTATTGTGCTATTTTAA-AATTTGGATAGATTCAATACATGATATT-AACTTG
* *
16124621 TCCAAATGATTGAACTTGGTTTCCACAG-TTGAAATATATGAAAAAGTT-ATCGTTTATGTCTAT
252 TCCAAATGATTAAACTTGGTTTCCA-AGATTGAAATATATGAAAAAGTTGAT-GTTTATATCTAT
* ** ** **
16124684 TTAAGACTTTTTATGCTGTTAAAAGTTAAAAAAGCAAAATTGCTATTA-TTGTGCTATTGTAATT
315 TTAAGACTTTTTATACCATTAAAAGGCAAAAAAGCAAAATTGCTA-TAGTTGTGCTATTGTAACA
* ** *
16124748 GTTTAAATAGCTTCAATACACA-ATATTAAACTTGTCCGAATGATTAAACTTGGTTTTCACAATT
379 ATTTAAATAGCTTCAATACA-AGATATTAAACTTGTCCGAATGATTAAACTTGACTTCCACAATT
* * *
16124812 GATATGTGTGAAAAGTTTCTATTTACCTCTGTTTAA
443 GAAATATGTGAAAAGTTTCTATTTACCTCTATTTAA
* ** * * * * *
16124848 GATTTTTTGTGTCATTAAAAGGCAAAAATGTAAATTTACTATTATTATTCTGTTTTAATAGTTT
1 GATTTTTTATGTCATTAAAAGGCAAAAATACAAAATTACTATCATTGTTGTATTTTAATAGTTT
16124912 GAATGATATT
Statistics
Matches: 459, Mismatches: 74, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
478 22 0.05
479 110 0.24
480 9 0.02
483 51 0.11
484 97 0.21
485 166 0.36
486 4 0.01
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (478 bp):
GATTTTTTATGTCATTAAAAGGCAAAAATACAAAATTACTATCATTGTTGTATTTTAATAGTTTA
GATAGCTTCAATACAGGATATTAAACTTGTTCAAATGATTGAACTTGATTTCCACAATTGATATG
TATGAAAAACTACCATTTACGTTTGTTTAAGATTTTTATGCCATTAAAAGGTAAAAATGCAAAAT
TACTATTATTGTGCTATTTTAAAATTTGGATAGATTCAATACATGATATTAACTTGTCCAAATGA
TTAAACTTGGTTTCCAAGATTGAAATATATGAAAAAGTTGATGTTTATATCTATTTAAGACTTTT
TATACCATTAAAAGGCAAAAAAGCAAAATTGCTATAGTTGTGCTATTGTAACAATTTAAATAGCT
TCAATACAAGATATTAAACTTGTCCGAATGATTAAACTTGACTTCCACAATTGAAATATGTGAAA
AGTTTCTATTTACCTCTATTTAA
Found at i:16125532 original size:21 final size:22
Alignment explanation
Indices: 16125506--16125570 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
16125496 AGAGAATAGG
*
16125506 AGCATGTTACAATT-AA-ACAGA
1 AGCATGTTAAAATTGAAGA-AGA
16125527 AGCATGTTAAAATTGAAGAAGA
1 AGCATGTTAAAATTGAAGAAGA
* * *
16125549 A-CATGTTAGAATGGAACAAGA
1 AGCATGTTAAAATTGAAGAAGA
16125570 A
1 A
16125571 CGTGCAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 31 0.82
22 6 0.16
23 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.22
Consensus pattern (22 bp):
AGCATGTTAAAATTGAAGAAGA
Found at i:16128282 original size:2 final size:2
Alignment explanation
Indices: 16128275--16128306 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16128265 GGTATGTTCC
16128275 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16128307 TGCATTAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16141860 original size:13 final size:13
Alignment explanation
Indices: 16141844--16141868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16141834 TGGATCCAAA
16141844 AAAAATATAAAAT
1 AAAAATATAAAAT
16141857 AAAAATATAAAA
1 AAAAATATAAAA
16141869 AATAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATATAAAAT
Found at i:16141876 original size:7 final size:7
Alignment explanation
Indices: 16141843--16141879 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
16141833 ATGGATCCAA
16141843 AAAAAAT
1 AAAAAAT
*
16141850 ATAAAAT
1 AAAAAAT
16141857 AAAAATAT
1 AAAAA-AT
16141865 AAAAAAT
1 AAAAAAT
16141872 AAAAAAT
1 AAAAAAT
16141879 A
1 A
16141880 GTAAAACAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:16141885 original size:15 final size:14
Alignment explanation
Indices: 16141843--16141885 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
16141833 ATGGATCCAA
16141843 AAAAAATATAAAAT
1 AAAAAATATAAAAT
*
16141857 AAAAATATAAAAAAT
1 AAAAA-ATATAAAAT
16141872 AAAAAATAGTAAAA
1 AAAAAATA-TAAAA
16141886 CAAGAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAAATATAAAAT
Done.